Manual pages
Scope: User Contributed Perl Documentation.
[ Alias ↣ ] Name (section) | Brief |
---|---|
a2ping(1) | … |
a2query(1) | Retrieve runtime configuration from a local Apache 2 HTTP server. |
AAT(3) | Apache::ASP Toolkit module. |
above(3pm) | Auto "use lib" when a module is in the tree of the PWD. |
accessors(3pm) | Create accessor methods in caller's package. |
accessors::chained(3pm) | Create method chaining accessors in caller's package. |
accessors::classic(3pm) | Create 'classic' read/write accessor methods in caller's package. |
accessors::ro(3pm) | Create 'classic' read-only accessor methods in caller's package. |
accessors::rw(3pm) | Create 'classic' read/write accessor methods in caller's package. |
acdcheck(1p) | … |
Ace(3pm) | Object-Oriented Access to ACEDB Databases. |
Ace::Browser::AceSubs(3pm) | Subroutines for AceBrowser. |
Ace::Browser::LocalSiteDefs(3pm) | Master Configuration file for AceBrowser. |
Ace::Browser::SearchSubs(3pm) | Subroutines for AceBrowser search scripts. |
Ace::Browser::SiteDefs(3pm) | Access to AceBrowser configuration files. |
Ace::Graphics::Fk(3pm) | A dummy feature object used for generating panel key tracks. |
Ace::Graphics::Glyph(3pm) | Base class for Ace::Graphics::Glyph objects. |
Ace::Graphics::Glyph::anchored_arrow(3pm) | The "anchored_arrow" glyph. |
Ace::Graphics::Glyph::arrow(3pm) | The "arrow" glyph. |
Ace::Graphics::Glyph::box(3pm) | The "box" glyph. |
Ace::Graphics::Glyph::dot(3pm) | The "ellipse" glyph. |
Ace::Graphics::Glyph::ex(3pm) | The "X" glyph. |
Ace::Graphics::Glyph::graded_segments(3pm) | The "color-coded segments" glyph. |
Ace::Graphics::Glyph::group(3pm) | The group glyph. |
Ace::Graphics::Glyph::line(3pm) | The "line" glyph. |
Ace::Graphics::Glyph::primers(3pm) | The "STS primers" glyph. |
Ace::Graphics::Glyph::segments(3pm) | The "discontinuous segments" glyph. |
Ace::Graphics::Glyph::span(3pm) | The "span" glyph. |
Ace::Graphics::Glyph::toomany(3pm) | The "too many to show" glyph. |
Ace::Graphics::Glyph::transcript(3pm) | The "gene" glyph. |
Ace::Graphics::Glyph::triangle(3pm) | The "triangle" glyph. |
Ace::Graphics::GlyphFactory(3pm) | Create Ace::Graphics::Glyphs. |
Ace::Graphics::Panel(3pm) | PNG graphics of Ace::Sequence::Feature objects. |
Ace::Graphics::Track(3pm) | PNG graphics of Ace::Sequence::Feature objects. |
Ace::Iterator(3pm) | Iterate Across an ACEDB Query. |
Ace::Local(3pm) | Use giface, tace or gifaceclient to open a local connection to an Ace database. |
Ace::Model(3pm) | Get information about AceDB models. |
Ace::Object(3pm) | Manipulate Ace Data Objects. |
Ace::Sequence(3pm) | Examine ACeDB Sequence Objects. |
Ace::Sequence::Feature(3pm) | Examine Sequence Feature Tables. |
Ace::Sequence::FeatureList(3pm) | Lightweight Access to Features. |
Ace::Sequence::GappedAlignment(3pm) | Gapped alignment object. |
Ace::Sequence::Gene(3pm) | Simple "Gene" Object. |
Ace::Sequence::Homol(3pm) | Temporary Sequence Homology Class. |
Ace::Sequence::Multi(3pm) | Combine Feature Tables from Multiple Databases. |
Ace::Sequence::Transcript(3pm) | Simple "Gene" Object. |
acheck(1) | Check common localization mistakes. |
acheck(5) | Acheck configuration file. |
acheck-rules(5) | Rules set for acheck. |
acidrip(1p) | A Gtk2::Perl wrapper for MPlayer / Mencoder. |
ack(1p) | Grep-like text finder. |
Acme::Bleach(3pm) | For really clean programs. |
Acme::Brainfuck(3pm) | Embed Brainfuck in your perl code. |
Acme::constant(3pm) | Like constant, except actually not. |
Acme::Damn(3pm) | 'Unbless' Perl objects. |
Acme::DWIM(3pm) | Perl's confusing operators made easy. |
Acme::EyeDrops(3pm) | Visual Programming in Perl. |
Acme::Morse(3pm) | Perl programming in morse code. |
Acme::POE::Knee(3pm) | Time sliced pony race using the POE kernel. |
AdapterRemoval(1) | Remove adapters from sequences in either single end or paired end experiments. |
add_bug_to_estraier(1p) | … |
AE(3pm) | Simpler/faster/newer/cooler AnyEvent API. |
AFS::PAG(3pm) | Perl bindings for AFS PAG manipulation. |
AI::FANN(3pm) | Perl wrapper for the Fast Artificial Neural Network library. |
Alert.pm(3) | Octopussy Alert module. |
alfilldb(1) | Add/update information of music files in the AudioLink database. |
Algorithm::C3(3pm) | A module for merging hierarchies using the C3 algorithm. |
Algorithm::CheckDigits(3pm) | Perl extension to generate and test check digits. |
Algorithm::CheckDigits::M07_001(3pm) | Compute check digits modulo 7 method 1. |
Algorithm::CheckDigits::M09_001(3pm) | Compute check digits for Euro notes. |
Algorithm::CheckDigits::M10_001(3pm) | Compute check digits for Bahncard (DE), IMEI, IMEISV, ISIN, Miles&More, Payback (DE),. |
Algorithm::CheckDigits::M10_002(3pm) | Compute check digits for CINS (US), SIREN (FR), SIRET (FR). |
Algorithm::CheckDigits::M10_003(3pm) | Compute check digits for ISMN. |
Algorithm::CheckDigits::M10_004(3pm) | Compute check digits for 2aus5, EAN, ILN, ISBN13, NVE. |
Algorithm::CheckDigits::M10_005(3pm) | Compute check digits for Deutsche Post Identcode/Leitcode (DE). |
Algorithm::CheckDigits::M10_006(3pm) | Compute check digits for Rentenversicherung (DE). |
Algorithm::CheckDigits::M10_008(3pm) | Compute check digits for Sedol (GB). |
Algorithm::CheckDigits::M10_009(3pm) | Compute check digits for Betriebsnummer (DE). |
Algorithm::CheckDigits::M10_010(3pm) | Compute check digits for Postscheckkonti (CH). |
Algorithm::CheckDigits::M10_011(3pm) | Compute check digits UPS (US). |
Algorithm::CheckDigits::M11_001(3pm) | Compute check digits for ISBN, ISSN, VAT RN (PT), HKID (HK), Wagon number (BR), NHS. |
Algorithm::CheckDigits::M11_002(3pm) | Compute check digits for PZN (DE). |
Algorithm::CheckDigits::M11_003(3pm) | Compute check digits for PKZ (GDR). |
Algorithm::CheckDigits::M11_004(3pm) | Compute check digits for CPF (BR), Titulo Eleitoral (BR). |
Algorithm::CheckDigits::M11_006(3pm) | Compute check digits for Codigo de Cuenta Corriente (ES). |
Algorithm::CheckDigits::M11_007(3pm) | Compute check digits for VAT Registration Number (FI). |
Algorithm::CheckDigits::M11_008(3pm) | Compute check digits for VAT Registration Number (DK). |
Algorithm::CheckDigits::M11_009(3pm) | Compute check digits NRIC (SG). |
Algorithm::CheckDigits::M11_010(3pm) | Compute check digits AHV number (CH). |
Algorithm::CheckDigits::M11_011(3pm) | Compute check digits for VAT Registration Number (NL). |
Algorithm::CheckDigits::M11_012(3pm) | Compute check digits for Bundeswehrpersonenkennnummer (DE). |
Algorithm::CheckDigits::M11_013(3pm) | Compute check digits for VAT Registration Number (GR). |
Algorithm::CheckDigits::M11_015(3pm) | Compute check digits for ESR5 (CH). |
Algorithm::CheckDigits::M11_016(3pm) | Compute check digits vor VAT Registration Number (PL). |
Algorithm::CheckDigits::M11_017(3pm) | Compute check digits for EC-No, EINECS, ELINCS. |
Algorithm::CheckDigits::M16_001(3pm) | Compute check digits for ISAN. |
Algorithm::CheckDigits::M23_001(3pm) | Compute check digits for DNI (ES). |
Algorithm::CheckDigits::M23_002(3pm) | Compute check digits for VAT Registration Number (IE). |
Algorithm::CheckDigits::M43_001(3pm) | Compute check digits for Code-39. |
Algorithm::CheckDigits::M89_001(3pm) | Compute check digits for VAT Registration Number (LU). |
Algorithm::CheckDigits::M97_001(3pm) | Compute check digits for VAT Registration Number (BE). |
Algorithm::CheckDigits::M97_002(3pm) | Compute check digits for International Bank Account Number (IBAN). |
Algorithm::CheckDigits::MBase_001(3pm) | Compute check digits for UPC (US). |
Algorithm::CheckDigits::MBase_002(3pm) | Compute check digits for blood bags (DE), BZUe (DE), VAT Registration Number (DE). |
Algorithm::CheckDigits::MBase_003(3pm) | Compute check digits for SICI (Serial Item and Contribution Identifier). |
Algorithm::CheckDigits::MXX_001(3pm) | Compute check digits for PA (DE). |
Algorithm::CheckDigits::MXX_002(3pm) | Compute check digits for CAS. |
Algorithm::CheckDigits::MXX_003(3pm) | Compute check digits for DEM. |
Algorithm::CheckDigits::MXX_004(3pm) | Compute check digits for VAT RN (AT). |
Algorithm::CheckDigits::MXX_005(3pm) | Compute check digits for ESR9 (CH). |
Algorithm::CheckDigits::MXX_006(3pm) | Compute check digits with Verhoeff scheme. |
Algorithm::Combinatorics(3pm) | Efficient generation of combinatorial sequences. |
Algorithm::Dependency(3pm) | Base class for implementing various dependency trees. |
Algorithm::Dependency::Item(3pm) | Implements an item in a dependency heirachy. |
Algorithm::Dependency::Ordered(3pm) | Implements an ordered dependency heirachy. |
Algorithm::Dependency::Source(3pm) | Implements a source of heirachy items. |
Algorithm::Dependency::Source::File(3pm) | File source for dependency heirachys. |
Algorithm::Dependency::Source::HoA(3pm) | Source for a HASH of ARRAYs. |
Algorithm::Dependency::Source::Invert(3pm) | Logically invert a source. |
Algorithm::Dependency::Weight(3pm) | Calculate dependency 'weights'. |
Algorithm::Diff(3pm) | Compute `intelligent' differences between two files / lists. |
Algorithm::Diff::XS(3pm) | Algorithm::Diff with XS core loop. |
Algorithm::DiffOld(3pm) | Compute `intelligent' differences between two files / lists but use the old (. |
Algorithm::LBFGS(3pm) | Perl extension for L-BFGS. |
Algorithm::Merge(3pm) | Three-way merge and diff. |
Algorithm::Munkres(3pm) | Perl extension for Munkres' solution to. |
Algorithm::Numerical::Sample(3pm) | Draw samples from a set. |
Algorithm::Permute(3pm) | Handy and fast permutation with object oriented interface. |
Algorithm::SVM(3pm) | Perl bindings for the libsvm Support Vector Machine library. |
Algorithm::SVM::DataSet(3pm) | A DataSet object for the Algorithm::SVM Support Vector Machine. |
algotutor(1) | An interactive program for observing the intermediate steps of algorithms. |
Alias(3pm) | Declare symbolic aliases for perl data. |
aliased(3pm) | Use shorter versions of class names. |
alien(1p) | Convert or install an alien binary package. |
Alien::FFI(3pm) | Get libffi compiler and linker flags. |
Alien::Gnuplot(3pm) | Find and verify functionality of the gnuplot executable. |
Alien::Package(3pm) | An object that represents a package. |
Alien::Package::Deb(3pm) | An object that represents a deb package. |
Alien::Package::Lsb(3pm) | An object that represents a lsb package. |
Alien::Package::Pkg(3pm) | An object that represents a Solaris pkg package. |
Alien::Package::Rpm(3pm) | An object that represents a rpm package. |
Alien::Package::Slp(3pm) | An object that represents a slp package. |
Alien::Package::Tgz(3pm) | An object that represents a tgz package. |
Alien::SDL(3pm) | Building, finding and using SDL binaries. |
Alien::SDL::ConfigData(3pm) | Configuration for Alien::SDL. |
Alien::wxWidgets(3pm) | Building, finding and using wxWidgets binaries. |
Alien::wxWidgets::Utility(3pm) | INTERNAL: do not use. |
align2kog.pl(1) | Converts an alignment into a kog file. |
all-knowing-dns(1p) | Tiny DNS server for IPv6 Reverse DNS. |
alsearch(1) | Search the AudioLink database for music. |
Alt(3pm) | Alternate Module Implementations. |
Alt::Alien::FFI::System(3pm) | Simplified alternative to Alien::FFI that uses system libffi. |
Alt::Assert(3pm) | Assert alternate module implementation. |
Alt::Base(3pm) | Base class for alternate module. |
altree(1p) | Association and Localisation tests using phylogenetic Trees. |
altree-add-S(1p) | Title... |
altree-convert(1p) | Title... |
ALTree::CUtils(3pm) | Perl extension for blah blah blah. |
Alzabo(3pm) | A data modelling tool and RDBMS-OO mapper. |
Alzabo::BackCompat(3pm) | Convert old data structures. |
Alzabo::ChangeTracker(3pm) | Saves a set of changes as callbacks that can be backed out if needed. |
Alzabo::Column(3pm) | Column objects. |
Alzabo::ColumnDefinition(3pm) | Holds the type attribute for a column. |
Alzabo::Config(3pm) | Alzabo configuration information. |
Alzabo::Create(3pm) | Loads all Alzabo::Create::* classes. |
Alzabo::Create::Column(3pm) | Column objects for use in schema creation. |
Alzabo::Create::ColumnDefinition(3pm) | Column definition object for schema creation. |
Alzabo::Create::ForeignKey(3pm) | Foreign key objects for schema creation. |
Alzabo::Create::Index(3pm) | Index objects for schema creation. |
Alzabo::Create::Schema(3pm) | Schema objects for schema creation. |
Alzabo::Create::Table(3pm) | Table objects for schema creation. |
Alzabo::Debug(3pm) | Creates constants used to turn on debugging. |
Alzabo::Design(3pm) | Documentation on Alzabo's design. |
Alzabo::Driver(3pm) | Alzabo base class for RDBMS drivers. |
Alzabo::Driver::MySQL(3pm) | MySQL specific Alzabo driver subclass. |
Alzabo::Driver::PostgreSQL(3pm) | PostgreSQL specific Alzabo driver subclass. |
Alzabo::Exceptions(3pm) | Creates all exception subclasses used in Alzabo. |
Alzabo::FAQ(3pm) | Frequently Asked Questions. |
Alzabo::ForeignKey(3pm) | Foreign key (relation) objects. |
Alzabo::Index(3pm) | Index objects. |
Alzabo::Intro(3pm) | Introductory information about Alzabo. |
Alzabo::MethodMaker(3pm) | Auto-generate useful methods based on an existing schema. |
Alzabo::MySQL(3pm) | Alzabo and MySQL. |
Alzabo::PostgreSQL(3pm) | Alzabo and PostgreSQL. |
Alzabo::QuickRef(3pm) | A quick reference to methods in the Alzabo classes. |
Alzabo::RDBMSRules(3pm) | Base class for Alzabo RDBMS rulesets. |
Alzabo::RDBMSRules::MySQL(3pm) | MySQL specific database rules. |
Alzabo::RDBMSRules::PostgreSQL(3pm) | PostgreSQL specific database rules. |
Alzabo::Runtime(3pm) | Loads all Alzabo::Runtime::* classes. |
Alzabo::Runtime::Column(3pm) | Column objects. |
Alzabo::Runtime::ColumnDefinition(3pm) | Column definition objects. |
Alzabo::Runtime::Cursor(3pm) | Base class for Alzabo cursors. |
Alzabo::Runtime::ForeignKey(3pm) | Foreign key objects. |
Alzabo::Runtime::Index(3pm) | Index objects. |
Alzabo::Runtime::InsertHandle(3pm) | A handle representing an insert. |
Alzabo::Runtime::JoinCursor(3pm) | Cursor that returns arrays of "Alzabo::Runtime::Row" objects. |
Alzabo::Runtime::Row(3pm) | Row objects. |
Alzabo::Runtime::RowCursor(3pm) | Cursor that returns "Alzabo::Runtime::Row" objects. |
Alzabo::Runtime::RowState::Deleted(3pm) | Row objects that have been deleted. |
Alzabo::Runtime::RowState::InCache(3pm) | Cached row objects that represent actual database rows. |
Alzabo::Runtime::RowState::Live(3pm) | Row objects representing rows in the database. |
Alzabo::Runtime::RowState::Potential(3pm) | Row objects that are not in the database. |
Alzabo::Runtime::Schema(3pm) | Schema objects. |
Alzabo::Runtime::Table(3pm) | Table objects. |
Alzabo::Runtime::UniqueRowCache(3pm) | Implements a row cache for Alzabo. |
Alzabo::Schema(3pm) | Schema objects. |
Alzabo::SQLMaker(3pm) | Alzabo base class for RDBMS drivers. |
Alzabo::SQLMaker::MySQL(3pm) | Alzabo SQL making class for MySQL. |
Alzabo::SQLMaker::PostgreSQL(3pm) | Alzabo SQL making class for PostgreSQL. |
Alzabo::Table(3pm) | Table objects. |
Alzabo::Utils(3pm) | Utility functions for other Alzabo modules. |
Amazon::S3(3pm) | A portable client library for working with and managing Amazon S3 buckets and keys. |
Amazon::S3::Bucket(3pm) | A container class for a S3 bucket and its contents. |
Amazon::SQS::Simple(3pm) | OO API for accessing the Amazon Simple Queue Service. |
Amazon::SQS::Simple::Base(3pm) | No user-serviceable parts included. |
Amazon::SQS::Simple::Message(3pm) | OO API for representing messages from the Amazon Simple Queue Service. |
Amazon::SQS::Simple::Queue(3pm) | OO API for representing queues from the Amazon Simple Queue Service. |
Amazon::SQS::Simple::SendResponse(3pm) | OO API for representing responses to messages sent to the Amazon Simple. |
analyze-pat.pl(1) | … |
Any::Moose(3pm) | (DEPRECATED) use Moo instead!. |
Any::Template::ProcessDir(3pm) | … |
Any::URI::Escape(3pm) | Load URI::Escape::XS preferentially over URI::Escape. |
AnyData(3pm) | (DEPRECATED) easy access to data in many formats. |
AnyData::Format::CSV(3pm) | Tiedhash & DBI/SQL access to CSV data. |
AnyData::Format::Fixed(3pm) | Tiedhash & DBI/SQL access to Fixed length data. |
AnyData::Format::HTMLtable(3pm) | Tied hash and DBI/SQL access to HTML tables. |
AnyData::Format::Ini(3pm) | Tiedhash & DBI/SQL access to ini files. |
AnyData::Format::Mp3(3pm) | Tied hash and DBI access to Mp3 files. |
AnyData::Format::Paragraph(3pm) | Tiedhash & DBI/SQL access to vertical files. |
AnyData::Format::Passwd(3pm) | Tied hash and DBI access to passwd files. |
AnyData::Format::Pipe(3pm) | Tiedhash & DBI/SQL access to Pipe delimited files. |
AnyData::Format::Tab(3pm) | Tiedhash & DBI/SQL access to Tab delimited files. |
AnyData::Format::Weblog(3pm) | Tiedhash & DBI/SQL access to HTTPD Logs. |
AnyData::Format::XML(3pm) | Tiedhash and DBI access to XML. |
AnyData::Storage::File(3pm) | … |
AnyEvent(3pm) | The DBI of event loop programming. |
AnyEvent::AggressiveIdle(3pm) | Aggressive idle processes for AnyEvent. |
AnyEvent::CacheDNS(3pm) | Simple DNS resolver with caching. |
AnyEvent::Callback(3pm) | Callback aggregator for AnyEvent watchers. |
AnyEvent::Connection(3pm) | Base class for tcp connectful clients. |
AnyEvent::DBD::Pg(3pm) | AnyEvent interface to DBD::Pg's async interface. |
AnyEvent::DBI(3pm) | Asynchronous DBI access. |
AnyEvent::Debug(3pm) | Debugging utilities for AnyEvent. |
AnyEvent::DNS(3pm) | Fully asynchronous DNS resolution. |
AnyEvent::FAQ(3pm) | Frequently asked questions. |
AnyEvent::FCGI(3pm) | Non-blocking FastCGI server. |
AnyEvent::FCGI::Connection(3pm) | A single connection handle for AnyEvent::FCGI. |
AnyEvent::FCGI::Request(3pm) | A single FastCGI request handle for AnyEvent::FCGI. |
AnyEvent::Feed(3pm) | Receiving RSS/Atom Feed reader with XML::Feed. |
AnyEvent::ForkObject(3pm) | Async access on objects. |
AnyEvent::Handle(3pm) | Non-blocking I/O on streaming handles via AnyEvent. |
AnyEvent::Handle::UDP(3pm) | Client/server UDP handles for AnyEvent. |
AnyEvent::HTTP(3pm) | Simple but non-blocking HTTP/HTTPS client. |
AnyEvent::HTTP::ScopedClient(3pm) | AnyEvent based. |
AnyEvent::HTTPD(3pm) | A simple lightweight event based web (application) server. |
AnyEvent::HTTPD::HTTPConnection(3pm) | A simple HTTP connection for request and response handling. |
AnyEvent::HTTPD::HTTPServer(3pm) | A simple and plain http server. |
AnyEvent::HTTPD::Request(3pm) | A web application request handle for AnyEvent::HTTPD. |
AnyEvent::HTTPD::Util(3pm) | Utility functions for AnyEvent::HTTPD. |
AnyEvent::I3(3pm) | Communicate with the i3 window manager. |
AnyEvent::Impl::Cocoa(3pm) | AnyEvent adaptor for Cocoa::EventLoop. |
AnyEvent::Impl::EV(3pm) | AnyEvent adaptor for EV. |
AnyEvent::Impl::Event(3pm) | AnyEvent adaptor for Event. |
AnyEvent::Impl::EventLib(3pm) | AnyEvent adaptor for Event::Lib. |
AnyEvent::Impl::FLTK(3pm) | AnyEvent adaptor for FLTK (Fast Light Toolkit version two). |
AnyEvent::Impl::Glib(3pm) | AnyEvent adaptor for Glib. |
AnyEvent::Impl::IOAsync(3pm) | AnyEvent adaptor for IO::Async. |
AnyEvent::Impl::Irssi(3pm) | AnyEvent adaptor for Irssi. |
AnyEvent::Impl::Perl(3pm) | AnyEvent adaptor for AnyEvent's pure perl AnyEvent::Loop. |
AnyEvent::Impl::POE(3pm) | AnyEvent adaptor for POE. |
AnyEvent::Impl::Qt(3pm) | AnyEvent adaptor for Qt. |
AnyEvent::Impl::Tk(3pm) | AnyEvent adaptor for Tk. |
AnyEvent::Impl::UV(3pm) | AnyEvent adaptor for UV. |
AnyEvent::Intro(3pm) | An introductory tutorial to AnyEvent. |
AnyEvent::IO(3pm) | The DBI of asynchronous I/O implementations. |
AnyEvent::IO::IOAIO(3pm) | AnyEvent::IO backend based on IO::AIO. |
AnyEvent::IO::Perl(3pm) | Pure perl backend for AnyEvent::IO. |
AnyEvent::IRC(3pm) | An event based IRC protocol client API. |
AnyEvent::IRC::Client(3pm) | A highlevel IRC connection. |
AnyEvent::IRC::Connection(3pm) | An IRC connection abstraction. |
AnyEvent::IRC::Util(3pm) | Common utilities that help with IRC protocol handling. |
AnyEvent::Log(3pm) | Simple logging "framework". |
AnyEvent::Loop(3pm) | AnyEvent's Pure-Perl event loop. |
AnyEvent::Memcached(3pm) | AnyEvent memcached client. |
AnyEvent::Memcached::Hash::WithNext(3pm) | Hashing algorythm for AE::Memcached. |
AnyEvent::Processor(3pm) | Base class to define an event-driven (AnyEvent) task that could periodically be. |
AnyEvent::Processor::Conversion(3pm) | Base class for conversion type subclasses. |
AnyEvent::Processor::Converter(3pm) | Role for any converter class. |
AnyEvent::Processor::WatchableTask(3pm) | Role for tasks which are watchable. |
AnyEvent::Processor::Watcher(3pm) | A watcher echoing a process messages, base class. |
AnyEvent::RabbitMQ(3pm) | An asynchronous and multi channel Perl AMQP client. |
AnyEvent::RabbitMQ::Channel(3pm) | Abstraction of an AMQP channel. |
AnyEvent::README(3pm) | Callback aggregator for AnyEvent watchers. |
AnyEvent::Redis(3pm) | Non-blocking Redis client. |
AnyEvent::Redis::Protocol(3pm) | Redis response parser (read handler) for AnyEvent. |
AnyEvent::Serialize(3pm) | Async serialize/deserialize function. |
AnyEvent::Socket(3pm) | Useful IPv4 and IPv6 stuff. also unix domain sockets. and stuff. |
AnyEvent::Strict(3pm) | Force strict mode on for the whole process. |
AnyEvent::TermKey(3pm) | Terminal key input using "libtermkey" with "AnyEvent". |
AnyEvent::TLS(3pm) | SSLv2/SSLv3/TLSv1 contexts for use in AnyEvent::Handle. |
AnyEvent::Tools(3pm) | Instrument collection for AnyEvent. |
AnyEvent::Util(3pm) | Various utility functions. |
AnyEvent::XMPP(3pm) | An implementation of the XMPP Protocol. |
AnyEvent::XMPP::Client(3pm) | XMPP Client abstraction. |
AnyEvent::XMPP::Component(3pm) | "XML" stream that implements the XEP-0114. |
AnyEvent::XMPP::Connection(3pm) | XML stream that implements the XMPP RFC 3920. |
AnyEvent::XMPP::Error(3pm) | Error class hierarchy for error reporting. |
AnyEvent::XMPP::Error::Exception(3pm) | Some exception was thrown somewhere. |
AnyEvent::XMPP::Error::IQ(3pm) | IQ errors. |
AnyEvent::XMPP::Error::IQAuth(3pm) | IQ authentication error. |
AnyEvent::XMPP::Error::Message(3pm) | Message errors. |
AnyEvent::XMPP::Error::MUC(3pm) | MUC error. |
AnyEvent::XMPP::Error::Parser(3pm) | XML parse errors. |
AnyEvent::XMPP::Error::Presence(3pm) | Presence errors. |
AnyEvent::XMPP::Error::Register(3pm) | In-band registration error. |
AnyEvent::XMPP::Error::SASL(3pm) | SASL authentication error. |
AnyEvent::XMPP::Error::Stanza(3pm) | Stanza errors. |
AnyEvent::XMPP::Error::Stream(3pm) | XML Stream errors. |
AnyEvent::XMPP::Ext(3pm) | Extension baseclass and documentation. |
AnyEvent::XMPP::Ext::DataForm(3pm) | XEP-0004 DataForm. |
AnyEvent::XMPP::Ext::Disco(3pm) | Service discovery manager class for XEP-0030. |
AnyEvent::XMPP::Ext::Disco::Info(3pm) | Service discovery info. |
AnyEvent::XMPP::Ext::Disco::Items(3pm) | Service discovery items. |
AnyEvent::XMPP::Ext::MUC(3pm) | Implements XEP-0045: Multi-User Chat. |
AnyEvent::XMPP::Ext::MUC::Message(3pm) | A room message. |
AnyEvent::XMPP::Ext::MUC::Room(3pm) | Room class. |
AnyEvent::XMPP::Ext::MUC::RoomInfo(3pm) | Room information. |
AnyEvent::XMPP::Ext::MUC::User(3pm) | User class. |
AnyEvent::XMPP::Ext::OOB(3pm) | XEP-0066 Out of Band Data. |
AnyEvent::XMPP::Ext::Ping(3pm) | Implementation of XMPP Ping XEP-0199. |
AnyEvent::XMPP::Ext::Pubsub(3pm) | Implements XEP-0060: Publish-Subscribe. |
AnyEvent::XMPP::Ext::Receipts(3pm) | XEP-0184 message receipts. |
AnyEvent::XMPP::Ext::RegisterForm(3pm) | Handle for in band registration. |
AnyEvent::XMPP::Ext::Registration(3pm) | Handles all tasks of in band registration. |
AnyEvent::XMPP::Ext::VCard(3pm) | VCards (XEP-0054 & XEP-0084). |
AnyEvent::XMPP::Ext::Version(3pm) | Software version. |
AnyEvent::XMPP::Extendable(3pm) | Extendable baseclass. |
AnyEvent::XMPP::IM::Account(3pm) | Instant messaging account. |
AnyEvent::XMPP::IM::Connection(3pm) | "XML" stream that implements the XMPP RFC 3921. |
AnyEvent::XMPP::IM::Contact(3pm) | Instant messaging roster contact. |
AnyEvent::XMPP::IM::Delayed(3pm) | A delayed "XML" stanza. |
AnyEvent::XMPP::IM::Message(3pm) | Instant message. |
AnyEvent::XMPP::IM::Presence(3pm) | XMPP presence. |
AnyEvent::XMPP::IM::Roster(3pm) | Instant messaging roster for XMPP. |
AnyEvent::XMPP::Namespaces(3pm) | XMPP namespace collection and aliasing class. |
AnyEvent::XMPP::Node(3pm) | XML node tree helper for the parser. |
AnyEvent::XMPP::Parser(3pm) | Parser for XML streams (helper for AnyEvent::XMPP). |
AnyEvent::XMPP::SimpleConnection(3pm) | Low level TCP/TLS connection. |
AnyEvent::XMPP::TestClient(3pm) | XMPP Test Client for tests. |
AnyEvent::XMPP::Util(3pm) | Utility functions for AnyEvent::XMPP. |
AnyEvent::XMPP::Writer(3pm) | "XML" writer for XMPP. |
AnyEvent::Yubico(3pm) | AnyEvent based Perl extension for validating YubiKey OTPs. Though AnyEvent is used. |
Apache2::Access(3pm) | A Perl API for Apache request object: Access, Authentication and Authorization. |
Apache2::AuthCASSimple(3pm) | Apache2 module to authentificate through a CAS server. |
Apache2::AuthCookie(3pm) | Perl Authentication and Authorization via cookies. |
Apache2::AuthCookie::Params(3pm) | AuthCookie Params Driver for mod_perl 2.x. |
Apache2::Build(3pm) | Methods for locating and parsing bits of Apache source code. |
Apache2::CmdParms(3pm) | Perl API for Apache command parameters object. |
Apache2::Command(3pm) | Perl API for accessing Apache module command information. |
Apache2::compat(3pm) | … |
Apache2::Connection(3pm) | Perl API for Apache connection object. |
Apache2::ConnectionUtil(3pm) | Perl API for Apache connection utils. |
Apache2::Const(3pm) | Perl Interface for Apache Constants. |
Apache2::Cookie(3pm) | HTTP Cookies Class. |
Apache2::Directive(3pm) | Perl API for manipulating the Apache configuration tree. |
Apache2::Filter(3pm) | Perl API for Apache 2.0 Filtering. |
Apache2::FilterRec(3pm) | Perl API for manipulating the Apache filter record. |
Apache2::HookRun(3pm) | Perl API for Invoking Apache HTTP phases. |
Apache2::Log(3pm) | Perl API for Apache Logging Methods. |
Apache2::Module(3pm) | Perl API for creating and working with Apache modules. |
Apache2::MPM(3pm) | Perl API for accessing Apache MPM information. |
Apache2::PerlSections(3pm) | Write Apache configuration files in Perl. |
Apache2::porting(3pm) | … |
Apache2::Process(3pm) | Perl API for Apache process record. |
Apache2::Reload(3pm) | Reload Perl Modules when Changed on Disk. |
Apache2::Request(3pm) | Methods for dealing with client request data. |
Apache2::RequestIO(3pm) | Perl API for Apache request record IO. |
Apache2::RequestRec(3pm) | Perl API for Apache request record accessors. |
Apache2::RequestUtil(3pm) | Perl API for Apache request record utils. |
Apache2::Resource(3pm) | Limit resources used by httpd children. |
Apache2::Response(3pm) | Perl API for Apache HTTP request response methods. |
Apache2::ServerRec(3pm) | Perl API for Apache server record accessors. |
Apache2::ServerUtil(3pm) | Perl API for Apache server record utils. |
Apache2::SiteControl(3pm) | Perl web site authentication/authorization system. |
Apache2::SiteControl::GrantAllRule(3pm) | A rule that grants permission to do everything. |
Apache2::SiteControl::ManagerFactory(3pm) | An abstract base class to use as a pattern for custom PermissionManager. |
Apache2::SiteControl::PermissionManager(3pm) | Rule-based permission management. |
Apache2::SiteControl::Radius(3pm) | Raduis authentication module for SiteControl. |
Apache2::SiteControl::Rule(3pm) | Permission manager access rule. |
Apache2::SiteControl::User(3pm) | User representations. |
Apache2::SiteControl::UserFactory(3pm) | User factory/persistence. |
Apache2::SizeLimit(3pm) | Because size does matter. |
Apache2::Status(3pm) | Embedded interpreter status information. |
Apache2::SubProcess(3pm) | … |
Apache2::SubRequest(3pm) | Perl API for Apache subrequests. |
Apache2::Upload(3pm) | Methods for dealing with file uploads. |
Apache2::URI(3pm) | Perl API for manipulating URIs. |
Apache2::Util(3pm) | Perl API for Misc Apache Utility functions. |
Apache2_4::AuthCookie(3pm) | Perl Authentication and Authorization via cookies for Apache 2.4. |
Apache::Admin::Config(3pm) | A module to read/write Apache like configuration files. |
Apache::ASP(3pm) | Active Server Pages for Apache with mod_perl. |
Apache::ASP::CGI::Table(3pm) | Layer for compatibility with Apache::Table objects. |
Apache::AuthCookie(3pm) | Perl Authentication and Authorization via cookies. |
Apache::AuthCookie::FAQ(3pm) | Frequently Asked Questions about Apache::AuthCookie. |
Apache::AuthCookie::Params(3pm) | AuthCookie Params Driver for mod_perl 1.x. |
Apache::AuthCookie::Params::Base(3pm) | Internal CGI AuthCookie Params Base Class. |
Apache::AuthCookie::Params::CGI(3pm) | Internal CGI Params Subclass. |
Apache::AuthCookie::Util(3pm) | Internal Utility Functions for AuthCookie. |
Apache::AuthDBI(3pm) | Authentication and Authorization via Perl's DBI. |
Apache::AuthenHook(3pm) | Perl API for Apache 2.1 authentication. |
Apache::AuthzNetLDAP(3pm) | Apache-Perl module that enables you to authorize a user for Website based on LDAP. |
Apache::DB(3pm) | Run the interactive Perl debugger under mod_perl. |
Apache::DBI(3pm) | Initiate a persistent database connection. |
Apache::DBILogger(3pm) | Tracks what's being transferred in a DBI database. |
Apache::DProf(3pm) | Hook Devel::DProf into mod_perl. |
Apache::ePerl(3pm) | Fast emulated Embedded Perl (ePerl) facility. |
Apache::Gallery(3pm) | Mod_perl handler to create an image gallery. |
Apache::Htgroup(3pm) | Manage Apache authentication group files. |
Apache::Htpasswd(3pm) | Manage Unix crypt-style password file. |
Apache::LogFormat::Compiler(3pm) | Compile a log format string to perl-code. |
Apache::perl5db(3pm) | The perl debugger. |
Apache::Qpsmtpd(3pm) | A mod_perl-2 connection handler for qpsmtpd. |
Apache::Session(3pm) | A persistence framework for session data. |
Apache::Session::Browseable(3pm) | Add index and search methods to Apache::Session. |
Apache::Session::Browseable::LDAP(3pm) | An implementation of Apache::Session::LDAP. |
Apache::Session::Browseable::MySQL(3pm) | Add index and search methods to Apache::Session::MySQL. |
Apache::Session::Browseable::MySQLJSON(3pm) | Add index and search methods to Apache::Session::MySQL. |
Apache::Session::Browseable::PgHstore(3pm) | Hstore type support for Apache::Session::Browseable::Postgres. |
Apache::Session::Browseable::PgJSON(3pm) | Hstore type support for Apache::Session::Browseable::Postgres. |
Apache::Session::Browseable::Postgres(3pm) | Add index and search methods to Apache::Session::Postgres. |
Apache::Session::Browseable::Redis(3pm) | Add index and search methods to Apache::Session::Redis. |
Apache::Session::Browseable::SQLite(3pm) | An implementation of Apache::Session. |
Apache::Session::Browseable::Store::LDAP(3pm) | Use LDAP to store persistent objects. |
Apache::Session::Browseable::Store::Redis(3pm) | An implementation of Apache::Session::Store. |
Apache::Session::Browseable::Store::SQLite(3pm) | Store persistent data in a SQLite database. |
Apache::Session::DB_File(3pm) | An implementation of Apache::Session. |
Apache::Session::File(3pm) | An implementation of Apache::Session. |
Apache::Session::Flex(3pm) | Specify everything at runtime. |
Apache::Session::Generate::MD5(3pm) | Use MD5 to create random object IDs. |
Apache::Session::Generate::ModUniqueId(3pm) | Mod_unique_id for session ID generation. |
Apache::Session::Generate::ModUsertrack(3pm) | Mod_usertrack for session ID generation. |
Apache::Session::Informix(3pm) | An implementation of Apache::Session. |
Apache::Session::LDAP(3pm) | An implementation of Apache::Session. |
Apache::Session::Lock::File(3pm) | Provides mutual exclusion using flock. |
Apache::Session::Lock::MySQL(3pm) | Provides mutual exclusion using MySQL. |
Apache::Session::Lock::Null(3pm) | Does not actually provides mutual exclusion. |
Apache::Session::Lock::Semaphore(3pm) | Provides mutual exclusion through semaphores. |
Apache::Session::Lock::Sybase(3pm) | Provides mutual exclusion using Sybase. |
Apache::Session::Memcached(3pm) | Stores persistent data using memcached (memory cache daemon) for Apache::Session. |
Apache::Session::MySQL(3pm) | An implementation of Apache::Session. |
Apache::Session::MySQL::NoLock(3pm) | An implementation of Apache::Session::MySQL without locking. |
Apache::Session::Oracle(3pm) | An implementation of Apache::Session. |
Apache::Session::Postgres(3pm) | An implementation of Apache::Session. |
Apache::Session::Serialize::Base64(3pm) | Use Storable and MIME::Base64 to zip up persistent data. |
Apache::Session::Serialize::Hstore(3pm) | Serialize/unserialize datas for PostgreSQL "hstore" storage. |
Apache::Session::Serialize::JSON(3pm) | Use JSON to zip up data. |
Apache::Session::Serialize::Storable(3pm) | Use Storable to zip up persistent data. |
Apache::Session::Serialize::Sybase(3pm) | Use Storable to zip up persistent data and unpack/pack to put into. |
Apache::Session::Serialize::UUEncode(3pm) | Use Storable and "pack()" to zip up persistent data. |
Apache::Session::SQLite3(3pm) | Use DBD::SQLite 1.x for Apache::Session storage. |
Apache::Session::Store::DB_File(3pm) | Use DB_File to store persistent objects. |
Apache::Session::Store::File(3pm) | Store persistent data on the filesystem. |
Apache::Session::Store::Informix(3pm) | Store persistent data in a Informix database. |
Apache::Session::Store::LDAP(3pm) | Use LDAP to store persistent objects. |
Apache::Session::Store::Memcached(3pm) | Stores persistent data using memcached (memory cache daemon) for. |
Apache::Session::Store::MySQL(3pm) | Store persistent data in a MySQL database. |
Apache::Session::Store::Oracle(3pm) | Store persistent data in a Oracle database. |
Apache::Session::Store::Postgres(3pm) | Store persistent data in a Postgres database. |
Apache::Session::Store::Sybase(3pm) | Store persistent data in a Sybase database. |
Apache::Session::Sybase(3pm) | An implementation of Apache::Session. |
Apache::Session::Wrapper(3pm) | A simple wrapper around Apache::Session. |
Apache::SessionX(3pm) | An extented persistence framework for session data. |
Apache::SessionX::Generate::MD5(3pm) | Use MD5 to create random object IDs. |
Apache::Singleton(3pm) | Singleton class for mod_perl. |
Apache::Singleton::Process(3pm) | One instance per One Process. |
Apache::Singleton::Request(3pm) | One instance per One Request. |
Apache::SizeLimit::Core(3pm) | Because size does matter. |
Apache::SmallProf(3pm) | Hook Devel::SmallProf into mod_perl. |
Apache::SOAP(3pm) | Mod_perl-based SOAP server with minimum configuration. |
Apache::SSLLookup(3pm) | Hooks for various mod_ssl functions. |
Apache::Test(3pm) | Test.pm wrapper with helpers for testing Apache. |
Apache::TestConfig(3pm) | … |
Apache::TestHandler(3pm) | A few response handlers and helpers. |
Apache::TestMB(3pm) | Subclass of Module::Build to support Apache::Test. |
Apache::TestMM(3pm) | Provide MakeMaker Wrapper Methods. |
Apache::TestReport(3pm) | A parent class for generating bug/success reports. |
Apache::TestRequest(3pm) | Send requests to your Apache test server. |
Apache::TestRun(3pm) | Run the test suite. |
Apache::TestRunPerl(3pm) | Run mod_perl-requiring Test Suite. |
Apache::TestRunPHP(3pm) | Configure and run a PHP-based test suite. |
Apache::TestSmoke(3pm) | Special Tests Sequence Failure Finder. |
Apache::TestTrace(3pm) | Helper output generation functions. |
Apache::TestUtil(3pm) | Utility functions for writing tests. |
Apache::XMLRPC(3pm) | Serve XML-RPC requests from Apache. |
Apache::XMLRPC::Lite(3pm) | Mod_perl-based XML-RPC server with minimum configuration. |
App::Alice(3pm) | An Altogether Lovely Internet Chatting Experience. |
App::AllKnowingDNS::Config(3pm) | Configuration object. |
App::AllKnowingDNS::Handler(3pm) | Main code of AllKnowingDNS. |
App::AllKnowingDNS::Util(3pm) | Utility functions. |
App::Asciio(3pm) | Plain ASCII diagram. |
App::Bot::BasicBot::Pluggable(3pm) | Base class for bot applications. |
App::Bot::BasicBot::Pluggable::Terminal(3pm) | Alters the default bot class to Bot::BasicBot::Pluggable::Terminal. |
App::Cache(3pm) | Easy application-level caching. |
App::CELL(3pm) | Configuration, Error-handling, Localization, and Logging. |
App::CELL::Config(3pm) | … |
App::CELL::Guide(3pm) | Introduction to App::CELL (POD-only module). |
App::CELL::Load(3pm) | … |
App::CELL::Log(3pm) | The Logging part of CELL. |
App::CELL::Message(3pm) | Handle messages the user might see. |
App::CELL::Status(3pm) | Class for return value objects. |
App::CELL::Test(3pm) | Functions for unit testing. |
App::CELL::Test::LogToFile(3pm) | Really activate logging (for use within unit tests). |
App::CELL::Util(3pm) | Generalized, reuseable functions. |
App::Cleo(3pm) | Play back shell commands for live demonstrations. |
App::CLI(3pm) | Dispatcher module for command line interface programs. |
App::CLI::Command(3pm) | Base class for App::CLI commands. |
App::CLI::Command::Help(3pm) | Output PODs of each command. |
App::ClusterSSH(3pm) | A container for functions of the ClusterSSH programs. |
App::ClusterSSH::Base(3pm) | Base object provding utility functions. |
App::ClusterSSH::Cluster(3pm) | Object representing cluster configuration. |
App::ClusterSSH::Config(3pm) | Object representing application configuration. |
App::ClusterSSH::Getopt(3pm) | Module to process command line args. |
App::ClusterSSH::Helper(3pm) | Object representing helper script. |
App::ClusterSSH::Host(3pm) | Object representing a host. |
App::ClusterSSH::L10N(3pm) | Base translations module. |
App::ClusterSSH::L10N::en(3pm) | Base English translations module. |
App::ClusterSSH::Range(3pm) | Object representing expandable ranges. |
App::Cmd(3pm) | Write command line apps with less suffering. |
App::Cmd::ArgProcessor(3pm) | App::Cmd-specific wrapper for Getopt::Long::Descriptive. |
App::Cmd::Command(3pm) | A base class for App::Cmd commands. |
App::Cmd::Command::commands(3pm) | List the application's commands. |
App::Cmd::Command::help(3pm) | Display a command's help screen. |
App::Cmd::Command::version(3pm) | Display an app's version. |
App::Cmd::Plugin(3pm) | A plugin for App::Cmd commands. |
App::Cmd::Plugin::Prompt(3pm) | Plug prompting routines into your commands. |
App::Cmd::Setup(3pm) | Helper for setting up App::Cmd classes. |
App::Cmd::Simple(3pm) | A helper for building one-command App::Cmd applications. |
App::Cmd::Subdispatch(3pm) | An App::Cmd::Command that is also an App::Cmd. |
App::Cmd::Subdispatch::DashedStyle(3pm) | "app cmd --subcmd" style subdispatching. |
App::Cmd::Tester(3pm) | For capturing the result of running an app. |
App::Cmd::Tester::CaptureExternal(3pm) | Extends App::Cmd::Tester to capture from external subprograms. |
App::Cmd::Tutorial(3pm) | Getting started with App::Cmd. |
App::Cme(3pm) | Check or edit configuration data with Config::Model. |
App::Cme::Command::check(3pm) | Check the configuration of an application. |
App::Cme::Command::dump(3pm) | Dump the configuration of an application. |
App::Cme::Command::edit(3pm) | Edit the configuration of an application. |
App::Cme::Command::fix(3pm) | Fix the configuration of an application. |
App::Cme::Command::fusefs(3pm) | Edit the configuration of an application with fuse. |
App::Cme::Command::gen_class_pod(3pm) | Generates pod doc from model files. |
App::Cme::Command::list(3pm) | List applications handled by cme. |
App::Cme::Command::meta(3pm) | Work on the configuration model of an application. |
App::Cme::Command::migrate(3pm) | Migrate the configuration of an application. |
App::Cme::Command::modify(3pm) | Modify the configuration of an application. |
App::Cme::Command::run(3pm) | Run a cme script. |
App::Cme::Command::search(3pm) | Search the configuration of an application. |
App::Cme::Command::shell(3pm) | Edit the configuration of an application with a shell. |
App::Cme::Command::update(3pm) | Update the configuration of an application. |
App::Cme::Common(3pm) | Common methods for App::Cme. |
App::Control(3pm) | Perl module for apachectl style control of another script or executable. |
App::Control::Apache(3pm) | App::Control subclass for apache. |
App::cpanlistchanges(3pm) | List changes for CPAN modules. |
App::cpanminus(3pm) | Get, unpack, build and install modules from CPAN. |
App::cpanminus::fatscript(3pm) | Get, unpack build and install modules from CPAN. |
App::cpanoutdated(3pm) | Detect outdated CPAN modules in your environment. |
App::CPANTS::Lint(3pm) | Front-end to Module::CPANTS::Analyse. |
App::Daemon(3pm) | Start an Application as a Daemon. |
App::FatPacker(3pm) | Pack your dependencies onto your script file. |
App::FatPacker::Trace(3pm) | Tracing module usage using compilation checking. |
App::Icli(3pm) | Icinga Command Line Interface. |
App::Icli::ConfigData(3pm) | Configuration for App::Icli. |
App::Info(3pm) | Information about software packages on a system. |
App::Info::Handler(3pm) | App::Info event handler base class. |
App::Info::Handler::Carp(3pm) | Use Carp to handle App::Info events. |
App::Info::Handler::Print(3pm) | Print App::Info event messages. |
App::Info::Handler::Prompt(3pm) | Prompting App::Info event handler. |
App::Info::HTTPD(3pm) | Information about web servers on a system. |
App::Info::HTTPD::Apache(3pm) | Information about Apache web server. |
App::Info::Lib(3pm) | Information about software libraries on a system. |
App::Info::Lib::Expat(3pm) | Information about the Expat XML parser. |
App::Info::Lib::Iconv(3pm) | Information about libiconv. |
App::Info::Lib::OSSPUUID(3pm) | Information about the OSSP UUID library. |
App::Info::RDBMS(3pm) | Information about databases on a system. |
App::Info::RDBMS::PostgreSQL(3pm) | Information about PostgreSQL. |
App::Info::RDBMS::SQLite(3pm) | Information about SQLite. |
App::Info::Request(3pm) | App::Info event handler request object. |
App::Info::Util(3pm) | Utility class for App::Info subclasses. |
App::KGB(3pm) | Collaborative IRC helper. |
App::KGB::API(3pm) | … |
App::KGB::Change(3pm) | A single file change. |
App::KGB::Client(3pm) | Relay commits to KGB servers. |
App::KGB::Client::CVS(3pm) | KGB interface to CVS. |
App::KGB::Client::Fake(3pm) | Fake KGB client. |
App::KGB::Client::Git(3pm) | Git support for KGB client. |
App::KGB::Client::RelayMsg(3pm) | Simple message relay KGB client. |
App::KGB::Client::ServerRef(3pm) | Server instance in KGB client. |
App::KGB::Client::Subversion(3pm) | KGB interface to Subversion. |
App::KGB::Commit(3pm) | A single commit. |
App::KGB::Commit::Tag(3pm) | A helper class for describing tags. |
App::KGB::Painter(3pm) | … |
App::Licensecheck(3pm) | Functions for a simple license checker for source files. |
App::mkdist(3pm) | Create distributions that will use Module::Package::RDF. |
App::Nopaste(3pm) | Easy access to any pastebin. |
App::Nopaste::Command(3pm) | Command-line utility for App::Nopaste. |
App::Nopaste::Service(3pm) | Base class for nopaste services. |
App::Nopaste::Service::Codepeek(3pm) | (DEPRECATED) Service for Codepeek - http://codepeek.com. |
App::Nopaste::Service::Debian(3pm) | Service provider for Debian - https://paste.debian.net/. |
App::Nopaste::Service::Gist(3pm) | Service provider for GitHub gist - http://gist.github.com/. |
App::Nopaste::Service::Mojopaste(3pm) | Service provider for mojopaste. |
App::Nopaste::Service::PastebinCom(3pm) | Service provider for Pastebin - http://pastebin.com/. |
App::Nopaste::Service::Pastie(3pm) | Service provider for Pastie - pastie.org. |
App::Nopaste::Service::Shadowcat(3pm) | Service provider for Shadowcat - http://paste.scsys.co.uk/. |
App::Nopaste::Service::Snitch(3pm) | Service provider for Snitch - http://nopaste.snit.ch/. |
App::Nopaste::Service::ssh(3pm) | Copies files to your server using scp. |
App::Nopaste::Service::Ubuntu(3pm) | Service provider for Ubuntu - https://paste.ubuntu.com/. |
App::Options(3pm) | Combine command line options, environment vars, and option file values (for program. |
App::Packer::PAR(3pm) | Pack applications in a single executable file. |
App::Parcimonie(3pm) | Tools for the parcimonie program. |
App::Parcimonie::Applet(3pm) | Systray applet object monitoring parcimonie's activities. |
App::Parcimonie::Daemon(3pm) | Parcimonie daemon class. |
App::Parcimonie::DBus::Object(3pm) | Provide parcimonie's D-Bus service and interface. |
App::Parcimonie::GnuPG::Interface(3pm) | Parcimonie's GnuPG::Interface subclass. |
App::Parcimonie::Role::HasCodeset(3pm) | Role to get the codeset being used. |
App::Parcimonie::Role::HasEncoding(3pm) | Role to provide an Encode::Encoding objet for the codeset being used. |
App::perlbrew(3pm) | Manage perl installations in your "$HOME". |
App::perlrdf(3pm) | Perlrdf command line utils. |
App::perlrdf::Command::Query(3pm) | SPARQL extension for App-perlrdf. |
App::perlrdf::Command::Void(3pm) | Generate VoID descriptions on the command line. |
App::pherkin(3pm) | Run Cucumber tests from the command line. |
App::Pinto(3pm) | Command-line driver for Pinto. |
App::Pinto::Command(3pm) | Base class for pinto commands. |
App::Pinto::Command::add(3pm) | Add local archives to the repository. |
App::Pinto::Command::clean(3pm) | Remove orphaned distribution archives. |
App::Pinto::Command::copy(3pm) | Create a new stack by copying another. |
App::Pinto::Command::default(3pm) | Mark the default stack. |
App::Pinto::Command::delete(3pm) | Permanently remove an archive. |
App::Pinto::Command::diff(3pm) | Show difference between two stacks. |
App::Pinto::Command::help(3pm) | Display a command's help screen. |
App::Pinto::Command::init(3pm) | Create a new repository. |
App::Pinto::Command::install(3pm) | Install stuff from the repository. |
App::Pinto::Command::kill(3pm) | Permanently delete a stack. |
App::Pinto::Command::list(3pm) | Show the packages in a stack. |
App::Pinto::Command::lock(3pm) | Mark a stack as read-only. |
App::Pinto::Command::log(3pm) | Show the revision logs of a stack. |
App::Pinto::Command::manual(3pm) | Show the full manual for a command. |
App::Pinto::Command::migrate(3pm) | Migrate repository to a new version. |
App::Pinto::Command::new(3pm) | Create a new empty stack. |
App::Pinto::Command::nop(3pm) | Do nothing. |
App::Pinto::Command::pin(3pm) | Force a package to stay in a stack. |
App::Pinto::Command::props(3pm) | Show or set stack properties. |
App::Pinto::Command::pull(3pm) | Pull archives from upstream repositories. |
App::Pinto::Command::register(3pm) | Put existing packages on a stack. |
App::Pinto::Command::rename(3pm) | Change the name of a stack. |
App::Pinto::Command::roots(3pm) | Show the roots of a stack. |
App::Pinto::Command::stacks(3pm) | Show available stacks. |
App::Pinto::Command::statistics(3pm) | Report statistics about the repository. |
App::Pinto::Command::thanks(3pm) | Show some gratitude. |
App::Pinto::Command::unlock(3pm) | Mark a stack as writable. |
App::Pinto::Command::unpin(3pm) | Free packages that have been pinned. |
App::Pinto::Command::unregister(3pm) | Remove packages from a stack. |
App::Pinto::Command::verify(3pm) | Report archives that are missing. |
App::pmuninstall(3pm) | Uninstall modules. |
App::Prolix(3pm) | Trim chatty command outputs. |
App::Prolix::MooseHelpers(3pm) | Moose helpers for App::Prolix. |
App::Prove(3pm) | Implements the "prove" command. |
App::Prove::Plugin::HTML(3pm) | A prove plugin for HTML output. |
App::Prove::State(3pm) | State storage for the "prove" command. |
App::Prove::State::Result(3pm) | Individual test suite results. |
App::Prove::State::Result::Test(3pm) | Individual test results. |
App::PRT(3pm) | Command line Perl Refactoring Tool. |
App::Rad(3pm) | Rapid (and easy!) creation of command line applications. |
App::Rad::Exclude(3pm) | 'exclude' command extension for App::Rad. |
App::Rad::Help(3pm) | 'help' command extension for App::Rad. |
App::Rad::Include(3pm) | 'include' command extension for App::Rad. |
App::Rad::Plugin(3pm) | Extend the App::Rad framework!. |
App::rdfns(3pm) | Quickly get common URI namespaces. |
App::REPL(3pm) | A container for functions for the iperl program. |
App::Sqitch(3pm) | … |
App::Sqitch::Command(3pm) | … |
App::Sqitch::Command::add(3pm) | … |
App::Sqitch::Command::bundle(3pm) | … |
App::Sqitch::Command::checkout(3pm) | … |
App::Sqitch::Command::config(3pm) | … |
App::Sqitch::Command::deploy(3pm) | … |
App::Sqitch::Command::engine(3pm) | … |
App::Sqitch::Command::help(3pm) | … |
App::Sqitch::Command::init(3pm) | … |
App::Sqitch::Command::log(3pm) | … |
App::Sqitch::Command::plan(3pm) | … |
App::Sqitch::Command::rebase(3pm) | … |
App::Sqitch::Command::revert(3pm) | … |
App::Sqitch::Command::rework(3pm) | … |
App::Sqitch::Command::show(3pm) | … |
App::Sqitch::Command::status(3pm) | … |
App::Sqitch::Command::tag(3pm) | … |
App::Sqitch::Command::target(3pm) | … |
App::Sqitch::Command::upgrade(3pm) | … |
App::Sqitch::Command::verify(3pm) | … |
App::Sqitch::Config(3pm) | … |
App::Sqitch::DateTime(3pm) | … |
App::Sqitch::Engine(3pm) | … |
App::Sqitch::Engine::firebird(3pm) | … |
App::Sqitch::Engine::mysql(3pm) | … |
App::Sqitch::Engine::oracle(3pm) | … |
App::Sqitch::Engine::pg(3pm) | … |
App::Sqitch::Engine::sqlite(3pm) | … |
App::Sqitch::Engine::vertica(3pm) | … |
App::Sqitch::ItemFormatter(3pm) | … |
App::Sqitch::Plan(3pm) | … |
App::Sqitch::Plan::Blank(3pm) | … |
App::Sqitch::Plan::Change(3pm) | … |
App::Sqitch::Plan::ChangeList(3pm) | … |
App::Sqitch::Plan::Depend(3pm) | … |
App::Sqitch::Plan::Line(3pm) | … |
App::Sqitch::Plan::LineList(3pm) | … |
App::Sqitch::Plan::Pragma(3pm) | … |
App::Sqitch::Plan::Tag(3pm) | … |
App::Sqitch::Role::DBIEngine(3pm) | … |
App::Sqitch::Role::RevertDeployCommand(3pm) | … |
App::Sqitch::Role::TargetConfigCommand(3pm) | … |
App::Sqitch::Target(3pm) | … |
App::Sqitch::Types(3pm) | … |
App::Sqitch::X(3pm) | … |
App::Stacktrace(3pm) | Stack trace. |
App::Termcast(3pm) | Broadcast your terminal sessions for remote viewing. |
App::Whiff(3pm) | Find the first executable of a series of alternatives. |
AppConfig(3pm) | Perl5 module for reading configuration files and parsing command line arguments. |
AppConfig::Args(3pm) | Perl5 module for reading command line arguments. |
AppConfig::CGI(3pm) | Perl5 module for processing CGI script parameters. |
AppConfig::File(3pm) | Perl5 module for reading configuration files. |
AppConfig::Getopt(3pm) | Perl5 module for processing command line arguments via delegation to Getopt::Long. |
AppConfig::State(3pm) | Application configuration state. |
AppConfig::Std(3pm) | Subclass of AppConfig that provides standard options. |
AppConfig::Sys(3pm) | Perl5 module defining platform-specific information and methods for other AppConfig::*. |
appendpdf(1p) | Append one PDF to another. |
Application.pm(3) | AAT Application module. |
apply_diff_relay_logs(1p) | Generating differential relay logs between the latest slave and target slave, and. |
applypatch(1p) | Apply 'makepatch' generated script to update a source tree. |
APR(3pm) | Perl Interface for Apache Portable Runtime (libapr and libaprutil Libraries). |
APR::Base64(3pm) | Perl API for APR base64 encoding/decoding functionality. |
APR::Brigade(3pm) | Perl API for manipulating APR Bucket Brigades. |
APR::Bucket(3pm) | Perl API for manipulating APR Buckets. |
APR::BucketAlloc(3pm) | Perl API for Bucket Allocation. |
APR::BucketType(3pm) | Perl API for APR bucket types. |
APR::Const(3pm) | Perl Interface for APR Constants. |
APR::Date(3pm) | Perl API for APR date manipulating functions. |
APR::Error(3pm) | Perl API for APR/Apache/mod_perl exceptions. |
APR::Finfo(3pm) | Perl API for APR fileinfo structure. |
APR::IpSubnet(3pm) | Perl API for accessing APRs ip_subnet structures. |
APR::OS(3pm) | Perl API for Platform-specific APR API. |
APR::PerlIO(3pm) | … |
APR::Pool(3pm) | Perl API for APR pools. |
APR::Request(3pm) | Wrapper for libapreq2's module/handle API. |
APR::Request::Apache2(3pm) | Wrapper for a mod_apreq2 handle. |
APR::Request::CGI(3pm) | Wrapper for libapreq2's CGI handle. |
APR::Request::Cookie(3pm) | Wrapper for libapreq2's cookie API. |
APR::Request::Error(3pm) | Wrapper for libapreq2's error API. |
APR::Request::Hook(3pm) | Wrapper for libapreq2's hook API. |
APR::Request::Param(3pm) | Wrapper for libapreq2's param API. |
APR::Request::Parser(3pm) | Wrapper for libapreq2's parser API. |
APR::SockAddr(3pm) | Perl API for APR socket address structure. |
APR::Socket(3pm) | Perl API for APR sockets. |
APR::Status(3pm) | Perl Interface to the APR_STATUS_IS_* macros. |
APR::String(3pm) | Perl API for manipulating APR UUIDs. |
APR::Table(3pm) | Perl API for manipulating APR opaque string-content tables. |
APR::ThreadMutex(3pm) | Perl API for APR thread mutexes. |
APR::ThreadRWLock(3pm) | Perl API for APR thread read/write locks. |
APR::URI(3pm) | Perl API for URI manipulations. |
APR::Util(3pm) | Perl API for Various APR Utilities. |
APR::UUID(3pm) | Perl API for manipulating APR UUIDs. |
apt-file(1) | … |
apt-mirror(1) | Apt sources mirroring tool. |
apt-show-source(1p) | Lists source-packages. |
apt-show-versions(1p) | Lists available package versions with distribution. |
apt-src(1p) | Manage debian source package trees. |
AptPkg(3pm) | Interface to libapt-pkg. |
AptPkg::Cache(3pm) | APT package cache interface. |
AptPkg::Config(3pm) | APT configuration interface. |
AptPkg::hash(3pm) | A helper class for implementing tied hashes. |
AptPkg::PkgRecords(3pm) | APT package description class. |
AptPkg::Policy(3pm) | APT package version policy class. |
AptPkg::Source(3pm) | APT source package interface. |
AptPkg::System(3pm) | APT system abstraction class. |
AptPkg::Version(3pm) | APT package versioning class. |
Arch(3pm) | GNU Arch Perl library. |
Arch::Backend(3pm) | Arch backend feature specific functions. |
Arch::Changes(3pm) | Class representing a list of changes. |
Arch::Changeset(3pm) | Class representing Arch changeset. |
Arch::DiffParser(3pm) | Parse file's diff and perform some manipulations. |
Arch::FileHighlighter(3pm) | Syntax-highlight file's content using markup. |
Arch::Inventory(3pm) | Class representing a tree inventory. |
Arch::Library(3pm) | Access arch revision libraries. |
Arch::LiteWeb(3pm) | Simple way to access web pages. |
Arch::Log(3pm) | Class representing Arch patch-log. |
Arch::Name(3pm) | Parse, store and construct an arch name. |
Arch::Registry(3pm) | Manage registered archives, search archives on the web. |
Arch::RevisionBunches(3pm) | Manage bunches of related revisions. |
Arch::Run(3pm) | Run subprocesses and capture output. |
Arch::RunLimit(3pm) | Class to enforce a limit on the number of running processes. |
Arch::Session(3pm) | Access arch archives. |
Arch::SharedCache(3pm) | A synchronized data structure (map) for IPC. |
Arch::SharedIndex(3pm) | A synchronized data structure (map) for IPC. |
Arch::Storage(3pm) | Abstract class to access arch archives. |
Arch::Tarball(3pm) | An interface to create and work with tarballs. |
Arch::TempFiles(3pm) | Help to manage temporary files/dirs. |
Arch::Test::Archive(3pm) | A test framework for Arch-Perl. |
Arch::Test::Cases(3pm) | A test framework for Arch-Perl. |
Arch::Test::Framework(3pm) | A test framework for Arch-Perl. |
Arch::Test::Tree(3pm) | A test framework for Arch-Perl. |
Arch::Tree(3pm) | Class representing Arch tree. |
Arch::Util(3pm) | Arch utility functions. |
Archive::Any(3pm) | Single interface to deal with file archives. |
Archive::Any::Create(3pm) | Abstract API to create archives (tar.gz and zip). |
Archive::Any::Lite(3pm) | Simple CPAN package extractor. |
Archive::Any::Plugin(3pm) | Anatomy of an Archive::Any plugin. |
Archive::Any::Plugin::Tar(3pm) | Archive::Any wrapper around Archive::Tar. |
Archive::Any::Plugin::Zip(3pm) | Archive::Any wrapper around Archive::Zip. |
Archive::Any::Tar(3pm) | Archive::Any wrapper around Archive::Tar. |
Archive::Any::Zip(3pm) | Archive::Any wrapper around Archive::Zip. |
Archive::Ar(3pm) | Interface for manipulating ar archives. |
Archive::Cpio(3pm) | Module for manipulations of cpio archives. |
Archive::Extract(3pm) | A generic archive extracting mechanism. |
Archive::Peek(3pm) | Peek into archives without extracting them. |
Archive::Tar::Wrapper(3pm) | API wrapper around the 'tar' utility. |
Archive::Zip(3pm) | Provide an interface to ZIP archive files. |
Archive::Zip::FAQ(3pm) | Answers to a few frequently asked questions about Archive::Zip. |
Archive::Zip::MemberRead(3pm) | A wrapper that lets you read Zip archive members as if they were files. |
Archive::Zip::Tree(3pm) | (DEPRECATED) methods for adding/extracting trees using Archive::Zip. |
arename(1) | Automatically rename audio files by tagging information. |
ArinWhois(3pm) | Perl extension to retrieve information from ARIN Whois database. |
Array(3pm) | Perl Array handling and conversion between Perl arrays and C array pointers. |
Array::Compare(3pm) | Perl extension for comparing arrays. |
Array::Diff(3pm) | Find the differences between two arrays. |
Array::Group(3pm) | Convert an array into array of arrayrefs of uniform size N. |
Array::IntSpan(3pm) | Handles arrays of scalars or objects using integer ranges. |
Array::IntSpan::Fields(3pm) | IntSpan array using integer fields as indices. |
Array::IntSpan::IP(3pm) | A Module for arrays using IP addresses as indices. |
Array::Iterator(3pm) | A simple class for iterating over Perl arrays. |
Array::Iterator::BiDirectional(3pm) | A subclass of Array::Iterator to allow forwards and backwards iteration. |
Array::Iterator::Circular(3pm) | A subclass of Array::Iterator to allow circular iteration. |
Array::Iterator::Reusable(3pm) | A subclass of Array::Iterator to allow reuse of iterators. |
Array::PrintCols(3pm) | Print or format array elements in vertically sorted columns. |
Array::RefElem(3pm) | Set up array elements as aliases. |
Array::Unique(3pm) | Tie-able array that allows only unique values. |
Array::Utils(3pm) | Small utils for array manipulation. |
artemis(1) | Interactive EXAFS data analysis. |
asa(3pm) | Lets your class/object say it works like something else. |
asp-perl(1p) | Apache::ASP CGI and command line script processor. |
Aspect(3pm) | Aspect-Oriented Programming (AOP) for Perl. |
Aspect::Advice(3pm) | Change how Perl code is run at a pointcut. |
Aspect::Advice::After(3pm) | Execute code after a function is called. |
Aspect::Advice::Around(3pm) | Execute code both before and after a function. |
Aspect::Advice::Before(3pm) | Execute code before a function is called. |
Aspect::Guard(3pm) | General purpose guard object for destroy-time actions. |
Aspect::Hook(3pm) | Holding area for internal generated code. |
Aspect::Legacy(3pm) | Legacy Compatibility for Aspect.pm. |
Aspect::Library(3pm) | Base class for all reusable aspects. |
Aspect::Library::Breakpoint(3pm) | A breakpoint aspect. |
Aspect::Library::Listenable(3pm) | Observer pattern with events. |
Aspect::Library::Singleton(3pm) | A singleton aspect. |
Aspect::Library::Wormhole(3pm) | A wormhole between call frames. |
Aspect::Modular(3pm) | First generation base class for reusable aspects. |
Aspect::Point(3pm) | The Join Point context. |
Aspect::Point::Functions(3pm) | Allow point context methods to be called as functions. |
Aspect::Point::Static(3pm) | The Join Point context for join point static parts. |
Aspect::Pointcut(3pm) | API for determining which events should be hooked. |
Aspect::Pointcut::And(3pm) | Logical 'and' pointcut. |
Aspect::Pointcut::Call(3pm) | Call pointcut. |
Aspect::Pointcut::Cflow(3pm) | Cflow pointcut. |
Aspect::Pointcut::Highest(3pm) | Pointcut for preventing recursive matching. |
Aspect::Pointcut::Logic(3pm) | Pointcut logic role. |
Aspect::Pointcut::Not(3pm) | Logical 'not' pointcut. |
Aspect::Pointcut::Or(3pm) | Logical 'or' pointcut. |
Aspect::Pointcut::Returning(3pm) | Function returning without exception. |
Aspect::Pointcut::Throwing(3pm) | Exception typing pointcut. |
Aspect::Pointcut::True(3pm) | Pointcut that allows arbitrary Perl code. |
Aspect::Pointcut::Wantarray(3pm) | A pointcut for the run-time wantarray context. |
Asterisk(3pm) | … |
Asterisk::AGI(3pm) | Simple Asterisk Gateway Interface Class. |
Asterisk::Astman(3pm) | Interface to the astman port. |
Asterisk::Conf::IAX(3pm) | IAX configuration stuff. |
Asterisk::Conf::MeetMe(3pm) | MeetMe configuration stuff. |
Asterisk::Conf::Zapata(3pm) | Zapata configuration stuff. |
Asterisk::Extension(3pm) | Stuff to deal with asterisk extension config. |
Asterisk::Manager(3pm) | Asterisk Manager Interface. |
Asterisk::Outgoing(3pm) | Create outgoing call queue file. |
Asterisk::Voicemail(3pm) | Stuff to deal with asterisk voicemail. |
Asterisk::Zapata(3pm) | Zapata stuff. |
Astro::FITS::CFITSIO(3pm) | Perl extension for using the cfitsio library. |
Astro::FITS::Header(3pm) | Object Orientated interface to FITS HDUs. |
Astro::FITS::Header::AST(3pm) | Manipulates FITS headers from an AST object. |
Astro::FITS::Header::CFITSIO(3pm) | Manipulates FITS headers from a FITS file. |
Astro::FITS::Header::GSD(3pm) | Manipulate FITS headers from GSD files. |
Astro::FITS::Header::Item(3pm) | A card image from a FITS header. |
Astro::FITS::Header::NDF(3pm) | Manipulate FITS headers from NDF files. |
asused(3pm) | Summaries address space used and according to the RIPE DB and REG. |
Async::Interrupt(3pm) | Allow C/XS libraries to interrupt perl asynchronously. |
Async::MergePoint(3pm) | Resynchronise diverged control flow. |
ataglist(1) | Print audio file metadata. |
atitvout(1) | ATI Rage/Radeon TV Out configuration program. |
AtomBus(3pm) | An AtomPub server for messaging. |
AtomBus::Schema(3pm) | … |
AtomBus::Schema::Result::AtomBusEntry(3pm) | … |
AtomBus::Schema::Result::AtomBusFeed(3pm) | … |
Atompub(3pm) | Atom Publishing Protocol implementation. |
Atompub::Client(3pm) | A client for the Atom Publishing Protocol. |
Atompub::DateTime(3pm) | A date and time object for the Atom Publishing Protocol. |
Atompub::MediaType(3pm) | A media type object for the Atom Publishing Protocol. |
Atompub::Server(3pm) | A server for the Atom Publishing Protocol. |
Atompub::Util(3pm) | Utility functions. |
atoms(1p) | Make lists of atomic coordinates from crystallographic data. |
Attean(3pm) | A Semantic Web Framework. |
Attean::AggregateExpression(3pm) | Representation of aggregate expression trees. |
Attean::Algebra(3pm) | Representation of SPARQL algebra operators. |
Attean::API(3pm) | Utility package for loading all Attean role packages. |
Attean::API::AbbreviatingParser(3pm) | Role for parsers that use construct absolute IRIs based on prefixed names or. |
Attean::API::AbbreviatingSerializer(3pm) | Role for serializers that can abbreviate IRIs as prefixed names or. |
Attean::API::AggregateExpression(3pm) | Role representing an aggregate expression tree. |
Attean::API::AppendableSerializer(3pm) | Role for serializers that can be repeatedly invoked while keeping output. |
Attean::API::AtOnceParser(3pm) | Role for parsers that natively parse all input before returning any data. |
Attean::API::Binding(3pm) | Name to term bindings. |
Attean::API::Blank(3pm) | Role representing RDF blank terms. |
Attean::API::BlankOrIRI(3pm) | Role representing blank or IRI terms. |
Attean::API::BulkUpdatableModel(3pm) | Role representing models that can perform bulk update operations. |
Attean::API::Expression(3pm) | SPARQL expressions. |
Attean::API::IRI(3pm) | Role representing RDF IRI terms. |
Attean::API::Iterator(3pm) | Typed iterator. |
Attean::API::Literal(3pm) | Role representing RDF Literal terms. |
Attean::API::MixedStatementParser(3pm) | Role for parsers of Attean::API::TripleOrQuad objects. |
Attean::API::MixedStatementSerializer(3pm) | Role for serializers of Attean::API::TripleOrQuad objects. |
Attean::API::Model(3pm) | RDF Model. |
Attean::API::MutableModel(3pm) | Role representing mutable models. |
Attean::API::MutableTripleStore(3pm) | Role representing mutable triple stores. |
Attean::API::Parser(3pm) | Parser role. |
Attean::API::Plan(3pm) | Query plan. |
Attean::API::PullParser(3pm) | Role for parsers that natively return an iterator. |
Attean::API::PushParser(3pm) | Role for parsers that natively call a callback function for each parsed item. |
Attean::API::Quad(3pm) | Role representing quads. |
Attean::API::QuadParser(3pm) | Role for parsers of Attean::API::Quad objects. |
Attean::API::QuadPattern(3pm) | Role representing quad patterns. |
Attean::API::QuadSerializer(3pm) | Role for serializers of Attean::API::Quad objects. |
Attean::API::Query(3pm) | Utility package defining query-related roles. |
Attean::API::QueryPlanner(3pm) | Iterative dynamic programming query planning role. |
Attean::API::RepeatableIterator(3pm) | Role representing iterators that may be reset and iterated again. |
Attean::API::Result(3pm) | Role representing a set of variable bindings. |
Attean::API::ResultParser(3pm) | Role for parsers of Attean::API::Result objects. |
Attean::API::ResultSerializer(3pm) | Role for serializers of Attean::API::Result objects. |
Attean::API::Serializer(3pm) | Serializer role. |
Attean::API::Store(3pm) | Triple/quad store role. |
Attean::API::Term(3pm) | RDF Terms. |
Attean::API::TermOrVariable(3pm) | Role representing terms and variables. |
Attean::API::TermParser(3pm) | Role for parsers of Attean::API::Term objects. |
Attean::API::TermSerializer(3pm) | Role for serializers of Attean::API::Term objects. |
Attean::API::Triple(3pm) | Role representing triples. |
Attean::API::TripleOrQuad(3pm) | Role representing triples and quads. |
Attean::API::TripleParser(3pm) | Role for parsers of Attean::API::Triple objects. |
Attean::API::TriplePattern(3pm) | Role representing triple patterns. |
Attean::API::TripleSerializer(3pm) | Role for serializers of Attean::API::Triple objects. |
Attean::API::Variable(3pm) | Role representing term variables. |
Attean::BindingEqualityTest(3pm) | Test for equality of binding sets with bnode isomorphism. |
Attean::Blank(3pm) | RDF blank nodes. |
Attean::CodeIterator(3pm) | Iterator implementation backed by a generator function. |
Attean::Expression(3pm) | SPARQL Expressions. |
Attean::IDPQueryPlanner(3pm) | Iterative dynamic programming query planner. |
Attean::IRI(3pm) | RDF Internationalized Resource Identifiers (IRIs). |
Attean::IteratorSequence(3pm) | Iterator implementation backed by zero or more sub-iterators. |
Attean::ListIterator(3pm) | Iterator implementation backed by a list/array of values. |
Attean::Literal(3pm) | RDF Literals. |
Attean::Plan(3pm) | Representation of SPARQL query plan operators. |
Attean::Quad(3pm) | RDF Quads. |
Attean::QuadModel(3pm) | RDF model backed by a quad-store. |
Attean::QueryPlanner(3pm) | Query planner. |
Attean::RDF(3pm) | Utility package for exporting shorthand functions for constructing RDF objects. |
Attean::Result(3pm) | SPARQL Result. |
Attean::SimpleQueryEvaluator(3pm) | Simple query evaluator. |
Attean::TermMap(3pm) | Mapping terms to new terms. |
Attean::TreeRewriter(3pm) | Walk and rewrite subtrees. |
Attean::Triple(3pm) | RDF Triples. |
Attean::TripleModel(3pm) | RDF model backed by a set of triple-stores. |
Attean::Variable(3pm) | Pattern matching variables. |
AtteanX::API::JoinRotatingPlanner(3pm) | Query planning role to produce alternative join plans. |
AtteanX::API::Lexer(3pm) | Role defining common functionality for lexers. |
AtteanX::Compatibility::Trine(3pm) | Compatibility layer between RDF::Trine and Attean. |
AtteanX::Endpoint(3pm) | SPARQL 1.1 Protocol Endpoint. |
AtteanX::Model::SPARQL(3pm) | Attean SPARQL Model. |
AtteanX::Parser::NQuads(3pm) | N-Quads Parser. |
AtteanX::Parser::NTriples(3pm) | N-Triples Parser. |
AtteanX::Parser::NTuples(3pm) | Shared functionality for N-Triples and N-Quads parsers. |
AtteanX::Parser::RDFXML(3pm) | RDF/XML Parser. |
AtteanX::Parser::SPARQL(3pm) | SPARQL 1.1 Parser. |
AtteanX::Parser::SPARQLJSON(3pm) | SPARQL JSON Parser. |
AtteanX::Parser::SPARQLLex(3pm) | SPARQL Lexer. |
AtteanX::Parser::SPARQLTSV(3pm) | SPARQL Results TSV Parser. |
AtteanX::Parser::SPARQLXML(3pm) | SPARQL XML Parser. |
AtteanX::Parser::SPARQLXML::SAXHandler(3pm) | XML parser for SPARQL XML Results format. |
AtteanX::Parser::Turtle(3pm) | Turtle RDF Parser. |
AtteanX::Parser::Turtle::Constants(3pm) | Constant definitions for use in parsing Turtle, TriG, and N-Triples. |
AtteanX::Parser::Turtle::Lexer(3pm) | Tokenizer for parsing Turtle, TriG, and N-Triples. |
AtteanX::Parser::Turtle::Token(3pm) | Token objects used for parsing of Turtle. |
AtteanX::Plan::LDF::Triple(3pm) | Plan for evaluation of Linked Data Fragments. |
AtteanX::Plan::SPARQLBGP(3pm) | Plan for efficient evaluation of SPARQL BGPs on remote endpoints. |
AtteanX::Query::AccessPlan::LDF(3pm) | An access plan for Linked Data Fragments. |
AtteanX::Query::AccessPlan::SingleQuadBGP(3pm) | An access plan for single-quad basic graph patterns. |
AtteanX::Serializer::CanonicalNTriples(3pm) | Canonical N-Triples Serializer. |
AtteanX::Serializer::NQuads(3pm) | N-Triples Serializer. |
AtteanX::Serializer::NTriples(3pm) | N-Triples Serializer. |
AtteanX::Serializer::NTuples(3pm) | Shared functionality for N-Triples and N-Quads serializers. |
AtteanX::Serializer::RDFXML(3pm) | RDF/XML Serializer. |
AtteanX::Serializer::SPARQL(3pm) | SPARQL Serializer. |
AtteanX::Serializer::SPARQLCSV(3pm) | SPARQL Results CSV Serializer. |
AtteanX::Serializer::SPARQLHTML(3pm) | SPARQL Results HTML Serializer. |
AtteanX::Serializer::SPARQLJSON(3pm) | SPARQL Results JSON Serializer. |
AtteanX::Serializer::SPARQLTSV(3pm) | SPARQL Results TSV Serializer. |
AtteanX::Serializer::SPARQLXML(3pm) | SPARQL Results XML Serializer. |
AtteanX::Serializer::Turtle(3pm) | Turtle Serializer. |
AtteanX::Serializer::TurtleTokens(3pm) | Turtle Serializer. |
AtteanX::SPARQL::Constants(3pm) | Constant definitions for use in parsing and serializing SPARQL. |
AtteanX::SPARQL::Token(3pm) | Token objects used for parsing and serializing SPARQL. |
AtteanX::Store::LDF(3pm) | Linked Data Fragment RDF store. |
AtteanX::Store::Memory(3pm) | Simple in-memory RDF store. |
AtteanX::Store::Simple(3pm) | Simple, unindexed, in-memory RDF store. |
AtteanX::Store::SimpleTripleStore(3pm) | SimpleTripleStore, unindexed, in-memory RDF store. |
AtteanX::Store::SPARQL(3pm) | Attean SPARQL store. |
Audio::APE(3pm) | An object-oriented interface to Monkey's Audio file information and APE tag fields. |
Audio::CD(3pm) | Perl interface to libcdaudio (cd + cddb). |
Audio::Ecasound(3pm) | Perl binding to the ecasound sampler, recorder, fx-processor. |
Audio::File(3pm) | Audio file abstraction library. |
Audio::File::AudioProperties(3pm) | Abstract an audio files audio properties. |
Audio::File::Tag(3pm) | Abstracts the tag of an audio file. |
Audio::File::Type(3pm) | Represents an audio filetype. |
Audio::FLAC::Decoder(3pm) | An object-oriented FLAC decoder. |
Audio::FLAC::Header(3pm) | Interface to FLAC header metadata. |
Audio::Mixer(3pm) | Perl extension for Sound Mixer control. |
Audio::Moosic(3pm) | Moosic client library for Perl. |
Audio::MPD(3pm) | Class to talk to MPD (Music Player Daemon) servers. |
Audio::MPD::Collection(3pm) | Class to query MPD's collection. |
Audio::MPD::Common(3pm) | Common helper classes for mpd. |
Audio::MPD::Common::Item(3pm) | A generic collection item. |
Audio::MPD::Common::Item::Directory(3pm) | A directory object. |
Audio::MPD::Common::Item::Playlist(3pm) | A playlist object. |
Audio::MPD::Common::Item::Song(3pm) | A song object with some audio tags. |
Audio::MPD::Common::Output(3pm) | Class representing MPD output. |
Audio::MPD::Common::Stats(3pm) | Class representing MPD stats. |
Audio::MPD::Common::Status(3pm) | Class representing MPD status. |
Audio::MPD::Common::Time(3pm) | Class representing time of current song. |
Audio::MPD::Common::Types(3pm) | Types used in the distribution. |
Audio::MPD::Playlist(3pm) | Class to mess MPD's playlist. |
Audio::MPD::Types(3pm) | Types used in the distribution. |
Audio::Musepack(3pm) | An object-oriented interface to Musepack file information and APE tag fields. |
Audio::Nama::ChainSetup(3pm) | Routines for generating Ecasound chain setup. |
Audio::Nama::Globals(3pm) | Nama global variables. |
Audio::Nama::Object(3pm) | Class builder. |
Audio::RPLD(3pm) | Module to communicate with RoarAudio PlayList Daemon. |
Audio::Scan(3pm) | Fast C metadata and tag reader for all common audio file formats. |
Audio::Scrobbler(3pm) | Perl interface to audioscrobbler.com/last.fm. |
Audio::Wav(3pm) | Modules for reading & writing Microsoft WAV files. |
Audio::Wav::Read(3pm) | Module for reading Microsoft WAV files. |
Audio::Wav::Write(3pm) | Module for writing Microsoft WAV files. |
Audio::WMA(3pm) | Perl extension for reading WMA/ASF Metadata. |
audio_rename(1p) | Rename an audio file via information got via MP3::Tag. |
audiolink(1) | Create AudioLink config file, databases and tables. |
Auth::GoogleAuth(3pm) | Google Authenticator TBOT Abstraction. |
Auth::Yubikey_Decrypter(3pm) | Decrypting the output from the yubikey token. |
Auth::Yubikey_WebClient(3pm) | Authenticating the Yubikey against the Yubico Web API. |
AuthCAS(3pm) | Client library for CAS 2.0 authentication server. |
Authen::Bitcard(3pm) | Bitcard authentication verification. |
Authen::Captcha(3pm) | Perl extension for creating captcha's to verify the human element in transactions. |
Authen::CAS::Client(3pm) | Provides an easy-to-use interface for authentication using JA-SIG's Central. |
Authen::CAS::Client::Response(3pm) | A set of classes for implementing responses from a CAS server. |
Authen::DecHpwd(3pm) | DEC VMS password hashing. |
Authen::Htpasswd(3pm) | Interface to read and modify Apache .htpasswd files. |
Authen::Htpasswd::User(3pm) | Represents a user line in a .htpasswd file. |
Authen::Htpasswd::Util(3pm) | Performs encryption of supported .htpasswd formats. |
Authen::Krb5(3pm) | Perl extension for Kerberos 5. |
Authen::Krb5::Admin(3pm) | Perl extension for MIT Kerberos 5 admin interface. |
Authen::Krb5::Simple(3pm) | Basic user authentication using Kerberos 5. |
Authen::Libwrap(3pm) | Access to Wietse Venema's TCP Wrappers library. |
Authen::NTLM(3pm) | An NTLM authentication module. |
Authen::OATH(3pm) | OATH One Time Passwords. |
Authen::PAM(3pm) | Perl interface to PAM library. |
Authen::PAM::FAQ(3pm) | Frequently-Asked Questions about Authen::PAM. |
Authen::Passphrase(3pm) | Hashed passwords/passphrases as objects. |
Authen::Passphrase::AcceptAll(3pm) | Accept any passphrase. |
Authen::Passphrase::BigCrypt(3pm) | Passphrases using bigcrypt algorithm. |
Authen::Passphrase::BlowfishCrypt(3pm) | Passphrases using the Blowfish-based Unix crypt(). |
Authen::Passphrase::Clear(3pm) | Cleartext passphrases. |
Authen::Passphrase::Crypt16(3pm) | Passphrases using Ultrix crypt16 algorithm. |
Authen::Passphrase::DESCrypt(3pm) | Passphrases using the DES-based Unix crypt(). |
Authen::Passphrase::EggdropBlowfish(3pm) | Passphrases using Eggdrop's blowfish.mod. |
Authen::Passphrase::LANManager(3pm) | Passphrases using the LAN Manager hash algorithm. |
Authen::Passphrase::LANManagerHalf(3pm) | Passphrases using half the LAN Manager algorithm. |
Authen::Passphrase::MD5Crypt(3pm) | Passphrases using the MD5-based Unix crypt(). |
Authen::Passphrase::MySQL323(3pm) | Passphrases using the MySQL v3.23 algorithm. |
Authen::Passphrase::MySQL41(3pm) | Passphrases using the MySQL v4.1 algorithm. |
Authen::Passphrase::NetscapeMail(3pm) | Passphrases using Netscape Mail Server's method. |
Authen::Passphrase::NTHash(3pm) | Passphrases using the NT-Hash algorithm. |
Authen::Passphrase::PHPass(3pm) | Passphrases using the phpass algorithm. |
Authen::Passphrase::RejectAll(3pm) | Reject all passphrases. |
Authen::Passphrase::SaltedDigest(3pm) | Passphrases using the generic salted digest algorithm. |
Authen::Passphrase::VMSPurdy(3pm) | Passphrases with the VMS Purdy polynomial system. |
Authen::Radius(3pm) | Provide simple Radius client facilities. |
Authen::SASL(3pm) | SASL Authentication framework. |
Authen::SASL::Cyrus(3pm) | XS code to glue Perl SASL to Cyrus SASL. |
Authen::SASL::Perl(3pm) | … |
Authen::SASL::Perl::ANONYMOUS(3pm) | Anonymous Authentication class. |
Authen::SASL::Perl::CRAM_MD5(3pm) | CRAM MD5 Authentication class. |
Authen::SASL::Perl::DIGEST_MD5(3pm) | Digest MD5 Authentication class. |
Authen::SASL::Perl::EXTERNAL(3pm) | External Authentication class. |
Authen::SASL::Perl::GSSAPI(3pm) | GSSAPI (Kerberosv5) Authentication class. |
Authen::SASL::Perl::LOGIN(3pm) | Login Authentication class. |
Authen::SASL::Perl::PLAIN(3pm) | Plain Login Authentication class. |
Authen::SASL::SASLprep(3pm) | A Stringprep Profile for User Names and Passwords (RFC 4013). |
Authen::SCRAM(3pm) | Salted Challenge Response Authentication Mechanism (RFC 5802). |
Authen::SCRAM::Client(3pm) | RFC 5802 SCRAM client. |
Authen::SCRAM::Server(3pm) | RFC 5802 SCRAM Server. |
Authen::Simple(3pm) | Simple Authentication. |
Authen::Simple::ActiveDirectory(3pm) | Simple ActiveDirectory authentication. |
Authen::Simple::Adapter(3pm) | Adapter class for implementations. |
Authen::Simple::Apache(3pm) | PerlAuthenHandler handler for Apache. |
Authen::Simple::CDBI(3pm) | Simple Class::DBI authentication. |
Authen::Simple::DBI(3pm) | Simple DBI authentication. |
Authen::Simple::DBM(3pm) | Simple DBM authentication. |
Authen::Simple::FTP(3pm) | Simple FTP authentication. |
Authen::Simple::HTTP(3pm) | Simple HTTP authentication. |
Authen::Simple::Kerberos(3pm) | Simple Kerberos authentication. |
Authen::Simple::LDAP(3pm) | Simple LDAP authentication. |
Authen::Simple::Log(3pm) | Simple log class. |
Authen::Simple::PAM(3pm) | Simple PAM authentication. |
Authen::Simple::Passwd(3pm) | Simple Passwd authentication. |
Authen::Simple::Password(3pm) | Simple password checking. |
Authen::Simple::POP3(3pm) | Simple POP3 authentication. |
Authen::Simple::RADIUS(3pm) | Simple RADIUS authentication. |
Authen::Simple::SMB(3pm) | Simple SMB authentication. |
Authen::Simple::SMTP(3pm) | Simple SMTP authentication. |
Authen::Smb(3pm) | Perl extension to authenticate against an SMB server. |
Authen::TacacsPlus(3pm) | Perl extension for authentication using tacacs+ server. |
autobox(3pm) | Call methods on native types. |
autobox::Core(3pm) | Provide core functions to autoboxed scalars, arrays and hashes. |
autobox::dump(3pm) | Human/perl readable strings from the results of an EXPR. |
autobox::Junctions(3pm) | Autoboxified junction-style operators. |
autobox::List::Util(3pm) | Bring the List::Util functions to autobox. |
autodia(1p) | A perl script using the Autodia modules to create UML Class Diagrams or documents. from code or. |
Autodia(3pm) | The configuration and Utility perl module for AutoDia. |
autodia(3pm) | A perl script using the Autodia modules to create UML Class Diagrams or documents. from code or. |
Autodia::Diagram(3pm) | Class to hold a collection of objects representing parts of a Dia Diagram. |
Autodia::Diagram::Class(3pm) | Class that holds, updates and outputs the values of a diagram element of type class. |
Autodia::Diagram::Component(3pm) | … |
Autodia::Handler(3pm) | Generic language handler superclass. |
Autodia::Handler::ASP(3pm) | AutoDia handler for ASP. |
Autodia::Handler::Cpp(3pm) | AutoDia handler for C++. |
Autodia::Handler::CSharp(3pm) | AutoDia handler for C#. |
Autodia::Handler::DBI(3pm) | AutoDia handler for DBI connections. |
Autodia::Handler::DBI_SQLT(3pm) | AutoDia handler for DBI connections. |
Autodia::Handler::dia(3pm) | AutoDia handler for dia. |
Autodia::Handler::Mason(3pm) | Allows Autodia to parse HTML::Mason files. |
Autodia::Handler::Perl(3pm) | AutoDia handler for perl. |
Autodia::Handler::PHP(3pm) | AutoDia handler for PHP. |
Autodia::Handler::SQL(3pm) | AutoDia handler for SQL. |
Autodia::Handler::Torque(3pm) | AutoDia handler for Torque xml database schema. |
Autodia::Handler::umbrello(3pm) | AutoDia handler for umbrello. |
autodie(3pm) | Replace functions with ones that succeed or die with lexical scope. |
autodie::exception(3pm) | Exceptions from autodying functions. |
autodie::exception::system(3pm) | Exceptions from autodying system(). |
autodie::hints(3pm) | Provide hints about user subroutines to autodie. |
autodie::Scope::Guard(3pm) | Wrapper class for calling subs at end of scope. |
autodie::Scope::GuardStack(3pm) | Hook stack for managing scopes via %^H. |
autodie::skip(3pm) | Skip a package when throwing autodie exceptions. |
autodie::Util(3pm) | Internal Utility subroutines for autodie and Fatal. |
AutoSearch(1p) | … |
autovivification(3pm) | Lexically disable autovivification. |
average_genome_size(1p) | Calculate the average genome size (in bp) of species in a Grinder library. |
AWS::Signature4(3pm) | Create a version4 signature for Amazon Web Services. |
B::Clobbers(3pm) | Clobbering analyzer. |
B::Compiling(3pm) | Expose PL_compiling to perl. |
B::ConstOptree(3pm) | Optree constant folding for $^O, $^V, and $]. |
B::Hooks::EndOfScope(3pm) | Execute code after a scope finished compilation. |
B::Hooks::EndOfScope::PP(3pm) | Execute code after a scope finished compilation - PP implementation. |
B::Hooks::EndOfScope::XS(3pm) | Execute code after a scope finished compilation - XS implementation. |
B::Hooks::OP::Annotation(3pm) | Annotate and delegate hooked OPs. |
B::Hooks::OP::Check(3pm) | Wrap OP check callbacks. |
B::Hooks::OP::Check::EntersubForCV(3pm) | Invoke callbacks on construction of entersub OPs for certain CVs. |
B::Hooks::OP::PPAddr(3pm) | Hook into opcode execution. |
B::Hooks::Parser(3pm) | Interface to perl's parser variables. |
B::Keywords(3pm) | Lists of reserved barewords and symbol names. |
B::Lint(3pm) | Perl lint. |
B::Lint::Debug(3pm) | Adds debugging stringification to B::. |
B::Module::Info(3pm) | Information about Perl modules. |
B::PerlReq(3pm) | Perl compiler backend to extract Perl dependencies. |
B::Utils(3pm) | Helper functions for op tree manipulation. |
B::Utils::OP(3pm) | Op related utility functions for perl. |
B::Walker(3pm) | Dumb walker, optree ranger. |
BackupPC::XS(3pm) | Perl extension for BackupPC libraries. |
Barcode::Code128(3pm) | Generate CODE 128 bar codes. |
Barcode::DataMatrix(3pm) | Generate data for Data Matrix barcodes. |
Barcode::DataMatrix::CharDataFiller(3pm) | Handle filling character data within the data matrix array. |
Barcode::DataMatrix::Constants(3pm) | Constants associated with the Reed-Solomon error correction encoding used for. |
Barcode::DataMatrix::Engine(3pm) | The engine which generates the data matrix bitmap. |
Barcode::DataMatrix::PNG(3pm) | Generate PNG graphical representations of Data Matrix barcodes. |
Barcode::DataMatrix::Reed(3pm) | Renamed version of Algorithm::DataMatrix::Reed. |
Barcode::ZBar(3pm) | Perl interface to the ZBar Barcode Reader. |
Barcode::ZBar::Image(3pm) | Image object to scan for bar codes. |
Barcode::ZBar::ImageScanner(3pm) | Scan images for bar codes. |
Barcode::ZBar::Processor(3pm) | Self-contained bar code reader. |
Barcode::ZBar::Symbol(3pm) | Bar code scan result object. |
bareword::filehandles(3pm) | Disables bareword filehandles. |
basepods(1p) | Print out pod paths for the standard perl manpages. |
basic_db_auth(8) | Database auth helper for Squid. |
basic_pop3_auth(8) | POP3 authenticator for Squid. |
beancounter(1p) | Stock portfolio performance monitor tool. |
bed2gff3(1p) | Convert UCSC Genome Browser-format gene files into GFF files suitable for loading into. |
Benchmark::Apps(3pm) | Simple interface to benchmark applications. |
Benchmark::ProgressBar(3pm) | Display Progress Bar While You Wait For Your Benchmark. |
Benchmark::Timer(3pm) | Benchmarking with statistical confidence. |
Bencode(3pm) | BitTorrent serialisation format. |
BER(3pm) | Basic Encoding Rules (BER) of Abstract Syntax Notation One (ASN.1). |
BerkeleyDB(3pm) | Perl extension for Berkeley DB version 2, 3, 4 or 5. |
Best(3pm) | Load modules with fallback. |
bgoffice-dict-download(1) | Download dictionaries for bgoffice. |
biber(1p) | A bibtex replacement for users of biblatex. |
Biber(3pm) | Main module for biber, a bibtex replacement for users of biblatex. |
Biber::Annotation(3pm) | … |
Biber::Config(3pm) | Configuration items which need to be saved across the. |
Biber::Constants(3pm) | Global constants for biber. |
Biber::DataList(3pm) | … |
Biber::DataLists(3pm) | … |
Biber::DataModel(3pm) | Biber::DataModel objects. |
Biber::Date::Format(3pm) | … |
Biber::Entries(3pm) | Biber::Entries objects. |
Biber::Entry(3pm) | Biber::Entry objects. |
Biber::Entry::Name(3pm) | Biber::Entry::Name objects. |
Biber::Entry::Names(3pm) | Biber::Entry::Names objects. |
Biber::Input::file::biblatexml(3pm) | Look in a BibLaTeXML file for an entry and create it if found. |
Biber::Input::file::bibtex(3pm) | Look in a BibTeX file for an entry and create it if found. |
Biber::Internals(3pm) | Internal methods for processing the bibliographic data. |
Biber::LaTeX::Recode(3pm) | Encode/Decode chars to/from UTF-8/lacros in LaTeX. |
Biber::Output::base(3pm) | Base class for Biber output modules. |
Biber::Output::bbl(3pm) | Class for Biber output of .bbl. |
Biber::Output::biblatexml(3pm) | Class for biblatexml output of tool mode. |
Biber::Output::bibtex(3pm) | Class for bibtex output. |
Biber::Output::dot(3pm) | Class for Biber output of GraphViz .dot files. |
Biber::Output::test(3pm) | Output class for loopback testing Essentially, this outputs to a string so we can look. |
Biber::Section(3pm) | Biber::Section objects. |
Biber::Sections(3pm) | Biber::Sections objects. |
Biber::UCollate(3pm) | … |
Biber::Utils(3pm) | Various utility subs used in Biber. |
Biblio::Citation::Parser(3pm) | Citation parsing framework. |
Biblio::Citation::Parser::Citebase(3pm) | Citebase's citation parsing module. |
Biblio::Citation::Parser::Jiao(3pm) | Citation parsing using Zhuoan Jiao's parsing module. |
Biblio::Citation::Parser::Jiao::Utility(3pm) | Perl module containing text processing subroutines. |
Biblio::Citation::Parser::Standard(3pm) | Citation parsing functionality. |
Biblio::Citation::Parser::Templates(3pm) | Citation templates collection. |
Biblio::Citation::Parser::Utils(3pm) | OpenURL utility functions. |
Biblio::EndnoteStyle(3pm) | Reference formatting using Endnote-like templates. |
Biblio::Isis(3pm) | Read CDS/ISIS, WinISIS and IsisMarc database. |
Biblio::Isis::Manual(3pm) | … |
Biblio::Thesaurus(3pm) | Perl extension for managing ISO thesaurus. |
BIND::Conf_Parser(3pm) | Parser class for BIND configuration files. |
BIND::Config::Parser(3pm) | Parse BIND Config file. |
Bio::Align::AlignI(3pm) | An interface for describing sequence alignments. |
Bio::Align::DNAStatistics(3pm) | Calculate some statistics for a DNA alignment. |
Bio::Align::Graphics(3pm) | Graphic Rendering of Bio::Align::AlignI Objects. |
Bio::Align::PairwiseStatistics(3pm) | Base statistic object for Pairwise Alignments. |
Bio::Align::ProteinStatistics(3pm) | Calculate Protein Alignment statistics (mostly distances). |
Bio::Align::StatisticsI(3pm) | Calculate some statistics for an alignment. |
Bio::Align::Utilities(3pm) | A collection of utilities regarding converting and manipulating alignment objects. |
Bio::AlignIO(3pm) | Handler for AlignIO Formats. |
Bio::AlignIO::arp(3pm) | ARP MSA Sequence input/output stream. |
Bio::AlignIO::bl2seq(3pm) | Bl2seq sequence input/output stream. |
Bio::AlignIO::clustalw(3pm) | Clustalw sequence input/output stream. |
Bio::AlignIO::emboss(3pm) | Parse EMBOSS alignment output (from applications water and needle). |
Bio::AlignIO::fasta(3pm) | Fasta MSA Sequence input/output stream. |
Bio::AlignIO::Handler::GenericAlignHandler(3pm) | Bio::HandlerI-based generic data handler class for. |
Bio::AlignIO::largemultifasta(3pm) | Largemultifasta MSA Sequence input/output stream. |
Bio::AlignIO::maf(3pm) | Multiple Alignment Format sequence input stream. |
Bio::AlignIO::mase(3pm) | Mase sequence input/output stream. |
Bio::AlignIO::mega(3pm) | Parse and Create MEGA format data files. |
Bio::AlignIO::meme(3pm) | Meme sequence input/output stream. |
Bio::AlignIO::metafasta(3pm) | Metafasta MSA Sequence input/output stream. |
Bio::AlignIO::msf(3pm) | Msf sequence input/output stream. |
Bio::AlignIO::nexml(3pm) | NeXML format sequence alignment input/output stream driver. |
Bio::AlignIO::nexus(3pm) | NEXUS format sequence input/output stream. |
Bio::AlignIO::pfam(3pm) | Pfam sequence input/output stream. |
Bio::AlignIO::phylip(3pm) | PHYLIP format sequence input/output stream. |
Bio::AlignIO::po(3pm) | Po MSA Sequence input/output stream. |
Bio::AlignIO::proda(3pm) | Proda sequence input/output stream. |
Bio::AlignIO::prodom(3pm) | Prodom sequence input/output stream. |
Bio::AlignIO::psi(3pm) | Read/Write PSI-BLAST profile alignment files. |
Bio::AlignIO::selex(3pm) | Selex sequence input/output stream. |
Bio::AlignIO::stockholm(3pm) | Stockholm sequence input/output stream. |
Bio::AlignIO::xmfa(3pm) | XMFA MSA Sequence input/output stream. |
Bio::AnalysisI(3pm) | An interface to any (local or remote) analysis tool. |
Bio::AnalysisParserI(3pm) | Generic analysis output parser interface. |
Bio::AnalysisResultI(3pm) | Interface for analysis result objects. |
Bio::AnnotatableI(3pm) | The base interface an annotatable object must implement. |
Bio::Annotation::AnnotationFactory(3pm) | Instantiates a new Bio::AnnotationI (or derived class) through a factory. |
Bio::Annotation::Collection(3pm) | Default Perl implementation of AnnotationCollectionI. |
Bio::Annotation::Comment(3pm) | A comment object, holding text. |
Bio::Annotation::DBLink(3pm) | Untyped links between databases. |
Bio::Annotation::OntologyTerm(3pm) | An ontology term adapted to AnnotationI. |
Bio::Annotation::Reference(3pm) | Specialised DBLink object for Literature References. |
Bio::Annotation::Relation(3pm) | Relationship (pairwise) with other objects SeqI and NodeI;. |
Bio::Annotation::SimpleValue(3pm) | A simple scalar. |
Bio::Annotation::StructuredValue(3pm) | A scalar with embedded structured information. |
Bio::Annotation::TagTree(3pm) | AnnotationI with tree-like hierarchal key-value relationships ('structured tags'). |
Bio::Annotation::Target(3pm) | Provides an object which represents a target (ie, a similarity hit) from one object. |
Bio::Annotation::Tree(3pm) | Provide a tree as an annotation to a Bio::AnnotatableI object. |
Bio::Annotation::TypeManager(3pm) | Manages types for annotation collections. |
Bio::AnnotationCollectionI(3pm) | Interface for annotation collections. |
Bio::AnnotationI(3pm) | Annotation interface. |
Bio::ASN1::EntrezGene(3pm) | Regular expression-based Perl Parser for NCBI Entrez Gene. |
Bio::ASN1::EntrezGene::Indexer(3pm) | Indexes NCBI Sequence files. |
Bio::ASN1::Sequence(3pm) | Regular expression-based Perl Parser for ASN.1-formatted NCBI Sequences. |
Bio::ASN1::Sequence::Indexer(3pm) | Indexes NCBI Sequence files. |
Bio::Assembly::Contig(3pm) | Perl module to hold and manipulate. |
Bio::Assembly::ContigAnalysis(3pm) | … |
Bio::Assembly::IO(3pm) | Handler for Assembly::IO Formats. |
Bio::Assembly::IO::ace(3pm) | Module to load ACE files from various assembly programs. |
Bio::Assembly::IO::bowtie(3pm) | An IO module for assemblies in Bowtie format *BETA*. |
Bio::Assembly::IO::maq(3pm) | Driver to read assembly files in maq format *BETA*. |
Bio::Assembly::IO::phrap(3pm) | Driver to load phrap.out files. |
Bio::Assembly::IO::sam(3pm) | An IO module for assemblies in Sam format *BETA*. |
Bio::Assembly::IO::tigr(3pm) | Driver to read and write assembly files in the TIGR Assembler v2 default format. |
Bio::Assembly::Scaffold(3pm) | Perl module to hold and manipulate sequence assembly data. |
Bio::Assembly::ScaffoldI(3pm) | Abstract Interface of Sequence Assemblies. |
Bio::Assembly::Singlet(3pm) | Perl module to hold and manipulate. |
Bio::Assembly::Tools::ContigSpectrum(3pm) | Create and manipulate contig spectra. |
Bio::Chado::NaturalDiversity::Reports(3pm) | Collection of functions for formatting Chado stock related data. |
Bio::Chado::Schema(3pm) | A standard DBIx::Class layer for the Chado database schema. |
Bio::Chado::Schema::Test(3pm) | Library to be used by Bio::Chado::Schema test scripts. |
Bio::Chado::Schema::Util(3pm) | Utility functions shared by Bio::Chado::Schema objects. |
Bio::Cluster::ClusterFactory(3pm) | Instantiates a new Bio::ClusterI (or derived class) through a factory. |
Bio::Cluster::FamilyI(3pm) | Family Interface. |
Bio::Cluster::SequenceFamily(3pm) | Sequence Family object. |
Bio::Cluster::UniGene(3pm) | UniGene object. |
Bio::Cluster::UniGeneI(3pm) | Abstract interface of UniGene object. |
Bio::ClusterI(3pm) | Cluster Interface. |
Bio::ClusterIO(3pm) | Handler for Cluster Formats. |
Bio::ClusterIO::dbsnp(3pm) | DbSNP input stream. |
Bio::ClusterIO::unigene(3pm) | UniGene input stream. |
Bio::CodonUsage::IO(3pm) | For reading and writing codon usage tables to file. |
Bio::CodonUsage::Table(3pm) | For access to the Codon usage Database at http://www.kazusa.or.jp/codon. |
Bio::Coordinate(3pm) | Modules for working with biological coordinates. |
Bio::Coordinate::Chain(3pm) | Mapping locations through a chain of coordinate mappers. |
Bio::Coordinate::Collection(3pm) | Noncontinuous match between two coordinate sets. |
Bio::Coordinate::ExtrapolatingPair(3pm) | Continuous match between two coordinate sets. |
Bio::Coordinate::GeneMapper(3pm) | Transformations between gene related coordinate systems. |
Bio::Coordinate::Graph(3pm) | Finds shortest path between nodes in a graph. |
Bio::Coordinate::MapperI(3pm) | Interface describing coordinate mappers. |
Bio::Coordinate::Pair(3pm) | Continuous match between two coordinate sets. |
Bio::Coordinate::Result(3pm) | Results from coordinate transformation. |
Bio::Coordinate::Result::Gap(3pm) | Another name for Bio::Location::Simple. |
Bio::Coordinate::Result::Match(3pm) | Another name for Bio::Location::Simple. |
Bio::Coordinate::ResultI(3pm) | Interface to identify coordinate mapper results. |
Bio::Coordinate::Utils(3pm) | Additional methods to create Bio::Coordinate objects. |
Bio::Das::FeatureTypeI(3pm) | Simple interface to Sequence Ontology feature types. |
Bio::Das::Lite(3pm) | Perl extension for the DAS (HTTP+XML) Protocol (http://biodas.org/). |
Bio::Das::SegmentI(3pm) | DAS-style access to a feature database. |
Bio::DasI(3pm) | DAS-style access to a feature database. |
Bio::DB::Ace(3pm) | Database object interface to ACeDB servers. |
Bio::DB::Bam::Alignment(3pm) | … |
Bio::DB::Bam::AlignWrapper(3pm) | … |
Bio::DB::Bam::Pileup(3pm) | … |
Bio::DB::Bam::PileupWrapper(3pm) | … |
Bio::DB::Bam::Query(3pm) | … |
Bio::DB::Bam::Target(3pm) | … |
Bio::DB::BioFetch(3pm) | Database object interface to BioFetch retrieval. |
Bio::DB::CUTG(3pm) | For access to the Codon usage Database at http://www.kazusa.or.jp/codon. |
Bio::DB::DBFetch(3pm) | Database object for retrieving using the dbfetch script. |
Bio::DB::EMBL(3pm) | Database object interface for EMBL entry retrieval. |
Bio::DB::EntrezGene(3pm) | Database object interface to Entrez Gene. |
Bio::DB::ESoap(3pm) | Client for the NCBI Entrez EUtilities SOAP server. |
Bio::DB::ESoap::WSDL(3pm) | WSDL parsing for Entrez SOAP EUtilities. |
Bio::DB::EUtilities(3pm) | Webagent which interacts with and retrieves data from NCBI's eUtils. |
Bio::DB::Expression(3pm) | DESCRIPTION of Object. |
Bio::DB::Expression::geo(3pm) | *** DESCRIPTION of Class. |
Bio::DB::Failover(3pm) | A Bio::DB::RandomAccessI compliant class which wraps a prioritized list of DBs. |
Bio::DB::Fasta(3pm) | Fast indexed access to fasta files. |
Bio::DB::FileCache(3pm) | In file cache for BioSeq objects. |
Bio::DB::Flat(3pm) | Interface for indexed flat files. |
Bio::DB::Flat::BDB(3pm) | Interface for BioHackathon standard BDB-indexed flat file. |
Bio::DB::Flat::BDB::embl(3pm) | Embl adaptor for Open-bio standard BDB-indexed flat file. |
Bio::DB::Flat::BDB::fasta(3pm) | Fasta adaptor for Open-bio standard BDB-indexed flat file. |
Bio::DB::Flat::BDB::genbank(3pm) | Genbank adaptor for Open-bio standard BDB-indexed flat file. |
Bio::DB::Flat::BDB::swiss(3pm) | Swissprot adaptor for Open-bio standard BDB-indexed flat file. |
Bio::DB::Flat::BinarySearch(3pm) | BinarySearch search indexing system for sequence files. |
Bio::DB::GenBank(3pm) | Database object interface to GenBank. |
Bio::DB::GenericWebAgent(3pm) | Helper base class for parameter-based remote server access and response retrieval. |
Bio::DB::GenPept(3pm) | Database object interface to GenPept. |
Bio::DB::GFF(3pm) | … |
Bio::DB::GFF::Adaptor::ace(3pm) | … |
Bio::DB::GFF::Adaptor::berkeleydb(3pm) | … |
Bio::DB::GFF::Adaptor::berkeleydb::iterator(3pm) | Iterator for Bio::DB::GFF::Adaptor::berkeleydb. |
Bio::DB::GFF::Adaptor::biofetch(3pm) | … |
Bio::DB::GFF::Adaptor::biofetch_oracle(3pm) | … |
Bio::DB::GFF::Adaptor::dbi(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::caching_handle(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::iterator(3pm) | Iterator for Bio::DB::GFF::Adaptor::dbi. |
Bio::DB::GFF::Adaptor::dbi::mysql(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::mysqlace(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::mysqlcmap(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::mysqlopt(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::oracle(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::oracleace(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::pg(3pm) | … |
Bio::DB::GFF::Adaptor::dbi::pg_fts(3pm) | … |
Bio::DB::GFF::Adaptor::memory(3pm) | … |
Bio::DB::GFF::Adaptor::memory::feature_serializer(3pm) | Utility methods for serializing and deserializing GFF. |
Bio::DB::GFF::Adaptor::memory::iterator(3pm) | Iterator for Bio::DB::GFF::Adaptor::memory. |
Bio::DB::GFF::Aggregator(3pm) | … |
Bio::DB::GFF::Aggregator::alignment(3pm) | … |
Bio::DB::GFF::Aggregator::clone(3pm) | … |
Bio::DB::GFF::Aggregator::coding(3pm) | … |
Bio::DB::GFF::Aggregator::gene(3pm) | … |
Bio::DB::GFF::Aggregator::match(3pm) | … |
Bio::DB::GFF::Aggregator::match_gap(3pm) | … |
Bio::DB::GFF::Aggregator::none(3pm) | … |
Bio::DB::GFF::Aggregator::orf(3pm) | … |
Bio::DB::GFF::Aggregator::processed_transcript(3pm) | … |
Bio::DB::GFF::Aggregator::reftranscript(3pm) | … |
Bio::DB::GFF::Aggregator::so_transcript(3pm) | … |
Bio::DB::GFF::Aggregator::transcript(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_acembly(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_ensgene(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_genscan(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_refgene(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_sanger22(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_sanger22pseudo(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_softberry(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_twinscan(3pm) | … |
Bio::DB::GFF::Aggregator::ucsc_unigene(3pm) | … |
Bio::DB::GFF::Aggregator::waba_alignment(3pm) | … |
Bio::DB::GFF::Aggregator::wormbase_gene(3pm) | … |
Bio::DB::GFF::Featname(3pm) | … |
Bio::DB::GFF::Feature(3pm) | … |
Bio::DB::GFF::Homol(3pm) | … |
Bio::DB::GFF::RelSegment(3pm) | … |
Bio::DB::GFF::Segment(3pm) | … |
Bio::DB::GFF::Typename(3pm) | … |
Bio::DB::GFF::Util::Binning(3pm) | Binning utility for Bio::DB::GFF index. |
Bio::DB::GFF::Util::Rearrange(3pm) | Rearrange utility. |
Bio::DB::HIV(3pm) | Database object interface to the Los Alamos HIV Sequence Database. |
Bio::DB::HIV::HIVAnnotProcessor(3pm) | Adds HIV-specific annotations to Bio::SeqIO streams. |
Bio::DB::HIV::HIVQueryHelper(3pm) | Routines and packages used by Bio::DB::HIV and Bio::DB::Query::HIVQuery. |
Bio::DB::IndexedBase(3pm) | Base class for modules using indexed sequence files. |
Bio::DB::InMemoryCache(3pm) | Abstract interface for a sequence database. |
Bio::DB::LocationI(3pm) | A RandomAccessI-like abstract interface for retrieving location data from a sequence. |
Bio::DB::MeSH(3pm) | Term retrieval from a Web MeSH database. |
Bio::DB::NCBIHelper(3pm) | A collection of routines useful for queries to NCBI databases. |
Bio::DB::Qual(3pm) | Fast indexed access to quality files. |
Bio::DB::Query::GenBank(3pm) | Build a GenBank Entrez Query. |
Bio::DB::Query::HIVQuery(3pm) | Query interface to the Los Alamos HIV Sequence Database. |
Bio::DB::Query::WebQuery(3pm) | Helper class for web-based sequence queryies. |
Bio::DB::QueryI(3pm) | Object Interface to queryable sequence databases. |
Bio::DB::RandomAccessI(3pm) | Abstract interface for a sequence database. |
Bio::DB::ReferenceI(3pm) | A RandomAccessI-like abstract interface for retrieving Reference data from a sequence. |
Bio::DB::RefSeq(3pm) | Database object interface for RefSeq retrieval. |
Bio::DB::Registry(3pm) | Access to the Open Bio Database Access registry scheme. |
Bio::DB::Sam(3pm) | … |
Bio::DB::Sam::Constants(3pm) | … |
Bio::DB::SeqFeature(3pm) | … |
Bio::DB::SeqFeature::NormalizedFeature(3pm) | … |
Bio::DB::SeqFeature::NormalizedFeatureI(3pm) | … |
Bio::DB::SeqFeature::NormalizedTableFeatureI(3pm) | … |
Bio::DB::SeqFeature::Segment(3pm) | … |
Bio::DB::SeqFeature::Store(3pm) | … |
Bio::DB::SeqFeature::Store::Alias(3pm) | … |
Bio::DB::SeqFeature::Store::bdb(3pm) | Fetch and store objects from a BerkeleyDB. |
Bio::DB::SeqFeature::Store::berkeleydb(3pm) | … |
Bio::DB::SeqFeature::Store::berkeleydb3(3pm) | … |
Bio::DB::SeqFeature::Store::DBI::Iterator(3pm) | Utility methods for creating and iterating over SeqFeature records. |
Bio::DB::SeqFeature::Store::DBI::mysql(3pm) | … |
Bio::DB::SeqFeature::Store::DBI::Pg(3pm) | … |
Bio::DB::SeqFeature::Store::DBI::SQLite(3pm) | … |
Bio::DB::SeqFeature::Store::FeatureFileLoader(3pm) | … |
Bio::DB::SeqFeature::Store::GFF2Loader(3pm) | … |
Bio::DB::SeqFeature::Store::GFF3Loader(3pm) | … |
Bio::DB::SeqFeature::Store::Loader(3pm) | … |
Bio::DB::SeqFeature::Store::LoadHelper(3pm) | … |
Bio::DB::SeqFeature::Store::memory(3pm) | … |
Bio::DB::SeqI(3pm) | Abstract Interface for Sequence databases. |
Bio::DB::SeqVersion(3pm) | Front end to querying databases for identifier versions. |
Bio::DB::SeqVersion::gi(3pm) | Interface to NCBI Sequence Revision History page. |
Bio::DB::SoapEUtilities(3pm) | Interface to the NCBI Entrez web service *BETA*. |
Bio::DB::SoapEUtilities::DocSumAdaptor(3pm) | Handle for Entrez SOAP DocSums. |
Bio::DB::SoapEUtilities::FetchAdaptor(3pm) | Conversion of Entrez SOAP messages to BioPerl objects. |
Bio::DB::SoapEUtilities::FetchAdaptor::seq(3pm) | Fetch adaptor for 'seq' efetch SOAP messages. |
Bio::DB::SoapEUtilities::FetchAdaptor::species(3pm) | Fetch adaptor for 'taxonomy' efetch SOAP messages. |
Bio::DB::SoapEUtilities::GQueryAdaptor(3pm) | Handle for Entrez SOAP GlobalQuery items. |
Bio::DB::SoapEUtilities::LinkAdaptor(3pm) | Handle for Entrez SOAP LinkSets. |
Bio::DB::SoapEUtilities::Result(3pm) | Accessor object for SoapEUtilities results. |
Bio::DB::SwissProt(3pm) | Database object interface to SwissProt retrieval. |
Bio::DB::Tagger(3pm) | … |
Bio::DB::Tagger::Tag(3pm) | … |
Bio::DB::Taxonomy(3pm) | Access to a taxonomy database. |
Bio::DB::Taxonomy::entrez(3pm) | Taxonomy Entrez driver. |
Bio::DB::Taxonomy::flatfile(3pm) | Use the NCBI taxonomy from local indexed flat files. |
Bio::DB::Taxonomy::greengenes(3pm) | Use the Greengenes taxonomy. |
Bio::DB::Taxonomy::list(3pm) | An implementation of Bio::DB::Taxonomy that accepts lists of words to build a. |
Bio::DB::Taxonomy::silva(3pm) | Use the Silva taxonomy. |
Bio::DB::Taxonomy::sqlite(3pm) | SQLite-based implementation of Bio::DB::Taxonomy::flatfile. |
Bio::DB::TFBS(3pm) | Access to a Transcription Factor Binding Site database. |
Bio::DB::TFBS::transfac_pro(3pm) | An implementation of Bio::DB::TFBS which uses local flat files for transfac pro. |
Bio::DB::Universal(3pm) | Artificial database that delegates to specific databases. |
Bio::DB::UpdateableSeqI(3pm) | An interface for writing to a database of sequences. |
Bio::DB::WebDBSeqI(3pm) | Object Interface to generalize Web Databases for retrieving sequences. |
Bio::DBLinkContainerI(3pm) | Abstract interface for any object wanting to use. |
Bio::DescribableI(3pm) | Interface for objects with human readable names and descriptions. |
Bio::Draw::Pictogram(3pm) | Generate SVG output of Pictogram display for consensus motifs. |
Bio::Event::EventGeneratorI(3pm) | This interface describes the basic event generator class. |
Bio::Event::EventHandlerI(3pm) | An Event Handler Interface. |
Bio::Factory::AnalysisI(3pm) | An interface to analysis tool factory. |
Bio::Factory::ApplicationFactoryI(3pm) | Interface class for Application Factories. |
Bio::Factory::DriverFactory(3pm) | Base class for factory classes loading drivers. |
Bio::Factory::EMBOSS(3pm) | EMBOSS application factory class. |
Bio::Factory::FTLocationFactory(3pm) | A FeatureTable Location Parser. |
Bio::Factory::LocationFactoryI(3pm) | A factory interface for generating locations from a string. |
Bio::Factory::MapFactoryI(3pm) | A Factory for getting markers. |
Bio::Factory::ObjectBuilderI(3pm) | Interface for an object builder. |
Bio::Factory::ObjectFactory(3pm) | Instantiates a new Bio::Root::RootI (or derived class) through a factory. |
Bio::Factory::ObjectFactoryI(3pm) | A General object creator factory. |
Bio::Factory::SeqAnalysisParserFactory(3pm) | Class capable of creating SeqAnalysisParserI compliant parsers. |
Bio::Factory::SeqAnalysisParserFactoryI(3pm) | Interface describing objects capable. |
Bio::Factory::SequenceFactoryI(3pm) | This interface allows for generic building of sequences in factories which. |
Bio::Factory::SequenceProcessorI(3pm) | Interface for chained sequence. |
Bio::Factory::SequenceStreamI(3pm) | Interface describing the basics of a Sequence Stream. |
Bio::Factory::TreeFactoryI(3pm) | Factory Interface for getting and writing trees. |
Bio::FeatureHolderI(3pm) | The base interface an object with features must implement. |
Bio::Graphics(3pm) | Generate GD images of Bio::Seq objects. |
Bio::Graphics::Browser2::AuthorizedFeatureFile(3pm) | … |
Bio::Graphics::Browser2::CAlign(3pm) | Compiled helper for Bio::Graphics::Browser::Realign. |
Bio::Graphics::Browser2::DataBase(3pm) | … |
Bio::Graphics::Browser2::DataLoader::archive(3pm) | Data loader for archives of BigWig files. |
Bio::Graphics::Browser2::DataLoader::useq(3pm) | Data loader for the USeq archive. |
Bio::Graphics::Browser2::DataSource(3pm) | … |
Bio::Graphics::Browser2::GFFhelper(3pm) | … |
Bio::Graphics::Browser2::Markup(3pm) | Markup routines for sequences in text form. |
Bio::Graphics::Browser2::OptionPick(3pm) | … |
Bio::Graphics::Browser2::PadAlignment(3pm) | Insert pads into a multiple alignment. |
Bio::Graphics::Browser2::Plugin(3pm) | … |
Bio::Graphics::Browser2::Plugin::AuthPlugin(3pm) | … |
Bio::Graphics::Browser2::PluginSet(3pm) | … |
Bio::Graphics::Browser2::Realign(3pm) | Perl extension for Smith-Waterman alignments. |
Bio::Graphics::Browser2::Region(3pm) | … |
Bio::Graphics::Browser2::RegionSearch(3pm) | … |
Bio::Graphics::Browser2::RemoteSet(3pm) | … |
Bio::Graphics::Browser2::Render(3pm) | … |
Bio::Graphics::Browser2::Render::Slave::AWS_Balancer(3pm) | … |
Bio::Graphics::Browser2::Render::Slave::Status(3pm) | … |
Bio::Graphics::Browser2::RenderPanels(3pm) | … |
Bio::Graphics::Browser2::Util(3pm) | … |
Bio::Graphics::ConfiguratorI(3pm) | A sectioned map of configuration options (a map of maps), with a default. |
Bio::Graphics::DrawTransmembrane(3pm) | Draw a cartoon of an Alpha-helical transmembrane protein. |
Bio::Graphics::Feature(3pm) | A simple feature object for use with Bio::Graphics::Panel. |
Bio::Graphics::FeatureBase(3pm) | Compatibility module. |
Bio::Graphics::FeatureDir(3pm) | … |
Bio::Graphics::FeatureFile(3pm) | … |
Bio::Graphics::FeatureFile::Iterator(3pm) | … |
Bio::Graphics::Glyph(3pm) | Base class for Bio::Graphics::Glyph objects. |
Bio::Graphics::Glyph::alignment(3pm) | The "alignment" glyph. |
Bio::Graphics::Glyph::allele_tower(3pm) | The "allele_tower" glyph. |
Bio::Graphics::Glyph::anchored_arrow(3pm) | The "anchored_arrow" glyph. |
Bio::Graphics::Glyph::arrow(3pm) | The "arrow" glyph. |
Bio::Graphics::Glyph::box(3pm) | The "box" glyph. |
Bio::Graphics::Glyph::broken_line(3pm) | The "broken line" glyph. |
Bio::Graphics::Glyph::cds(3pm) | The "cds" glyph. |
Bio::Graphics::Glyph::christmas_arrow(3pm) | The "christmas arrow" glyph. |
Bio::Graphics::Glyph::crossbox(3pm) | The "crossbox" glyph. |
Bio::Graphics::Glyph::dashed_line(3pm) | The "dashed line" glyph. |
Bio::Graphics::Glyph::decorated_gene(3pm) | A GFF3-compatible gene glyph with protein decorations. |
Bio::Graphics::Glyph::decorated_transcript(3pm) | Draws processed transcript with protein decorations. |
Bio::Graphics::Glyph::diamond(3pm) | The "diamond" glyph. |
Bio::Graphics::Glyph::dna(3pm) | The "dna" glyph. |
Bio::Graphics::Glyph::dot(3pm) | The "dot" glyph. |
Bio::Graphics::Glyph::dumbbell(3pm) | A glyph that draws a "dumbbell" with the same shapes on both ends. |
Bio::Graphics::Glyph::ellipse(3pm) | The "ellipse" glyph. |
Bio::Graphics::Glyph::ex(3pm) | The "ex", or "crossed box" glyph. |
Bio::Graphics::Glyph::extending_arrow(3pm) | … |
Bio::Graphics::Glyph::Factory(3pm) | Factory for Bio::Graphics::Glyph objects. |
Bio::Graphics::Glyph::fb_shmiggle(3pm) | … |
Bio::Graphics::Glyph::fixedwidth(3pm) | A base class fixed width glyphs. |
Bio::Graphics::Glyph::flag(3pm) | The "flag" glyph. |
Bio::Graphics::Glyph::gene(3pm) | A GFF3-compatible gene glyph. |
Bio::Graphics::Glyph::generic(3pm) | The "generic" glyph. |
Bio::Graphics::Glyph::graded_segments(3pm) | The "graded_segments" glyph. |
Bio::Graphics::Glyph::group(3pm) | The "group" glyph. |
Bio::Graphics::Glyph::hat(3pm) | The "hat" glyph. |
Bio::Graphics::Glyph::heat_map(3pm) | The "heat_map" glyph. |
Bio::Graphics::Glyph::heat_map_ideogram(3pm) | The "heat_map_ideogram" glyph. |
Bio::Graphics::Glyph::heterogeneous_segments(3pm) | The "heterogeneous_segments" glyph. |
Bio::Graphics::Glyph::hidden(3pm) | The "hidden" glyph. |
Bio::Graphics::Glyph::hybrid_plot(3pm) | An xyplot plot drawing dual graph using data from two or more wiggle files. |
Bio::Graphics::Glyph::ideogram(3pm) | The "ideogram" glyph. |
Bio::Graphics::Glyph::image(3pm) | A glyph that draws photographs & other images. |
Bio::Graphics::Glyph::lightning(3pm) | The "lightning" glyph. |
Bio::Graphics::Glyph::line(3pm) | The "line" glyph. |
Bio::Graphics::Glyph::merge_parts(3pm) | A base class which suppors semantic zooming of scored alignment features. |
Bio::Graphics::Glyph::merged_alignment(3pm) | The "merged_alignment" glyph. |
Bio::Graphics::Glyph::minmax(3pm) | The minmax glyph. |
Bio::Graphics::Glyph::operon(3pm) | The "polycistronic operon" glyph. |
Bio::Graphics::Glyph::oval(3pm) | The "oval" glyph. |
Bio::Graphics::Glyph::pairplot(3pm) | The "pairwise plot" glyph. |
Bio::Graphics::Glyph::pentagram(3pm) | The "pentagram" glyph. |
Bio::Graphics::Glyph::phylo_align(3pm) | The "phylogenetic alignment" glyph. |
Bio::Graphics::Glyph::pinsertion(3pm) | The "Drosophila P-element Insertion" glyph. |
Bio::Graphics::Glyph::primers(3pm) | The "STS primers" glyph. |
Bio::Graphics::Glyph::processed_transcript(3pm) | The sequence ontology transcript glyph. |
Bio::Graphics::Glyph::protein(3pm) | The "protein" glyph. |
Bio::Graphics::Glyph::ragged_ends(3pm) | The "ragged ends" glyph. |
Bio::Graphics::Glyph::rainbow_gene(3pm) | A GFF3-compatible gene glyph. |
Bio::Graphics::Glyph::redgreen_box(3pm) | The "redgreen_box" glyph. |
Bio::Graphics::Glyph::redgreen_segment(3pm) | The "redgreen_segments" glyph. |
Bio::Graphics::Glyph::repeating_shape(3pm) | A glyph that draws the same shape repeatedly. |
Bio::Graphics::Glyph::rndrect(3pm) | The "round rect" glyph. |
Bio::Graphics::Glyph::ruler_arrow(3pm) | Glyph for drawing an arrow as ruler (5' and 3' are marked as label). |
Bio::Graphics::Glyph::saw_teeth(3pm) | The "saw teeth" glyph. |
Bio::Graphics::Glyph::scale(3pm) | The "scale" glyph. |
Bio::Graphics::Glyph::segmented_keyglyph(3pm) | The "segmented_keyglyph" glyph. |
Bio::Graphics::Glyph::segments(3pm) | The "segments" glyph. |
Bio::Graphics::Glyph::so_transcript(3pm) | The sequence ontology transcript glyph. |
Bio::Graphics::Glyph::span(3pm) | The "span" glyph. |
Bio::Graphics::Glyph::spectrogram(3pm) | The "spectrogram" glyph. |
Bio::Graphics::Glyph::splice_site(3pm) | The "splice_site" glyph. |
Bio::Graphics::Glyph::stackedplot(3pm) | The stackedplot glyph. |
Bio::Graphics::Glyph::ternary_plot(3pm) | Draw ternary plot data. |
Bio::Graphics::Glyph::text_in_box(3pm) | The "text in box" glyph. |
Bio::Graphics::Glyph::three_letters(3pm) | DAS-compatible package to use for drawing a line of groups of three. |
Bio::Graphics::Glyph::tic_tac_toe(3pm) | The "tic-tac-toe" glyph. |
Bio::Graphics::Glyph::toomany(3pm) | The "too many to show" glyph. |
Bio::Graphics::Glyph::trace(3pm) | A glyph that visualizes a trace file. |
Bio::Graphics::Glyph::track(3pm) | The "track" glyph. |
Bio::Graphics::Glyph::transcript(3pm) | The "transcript" glyph. |
Bio::Graphics::Glyph::transcript2(3pm) | The "transcript2" glyph. |
Bio::Graphics::Glyph::translation(3pm) | The "6-frame translation" glyph. |
Bio::Graphics::Glyph::triangle(3pm) | The "triangle" glyph. |
Bio::Graphics::Glyph::two_bolts(3pm) | The "two bolts" glyph. |
Bio::Graphics::Glyph::vista_plot(3pm) | The "vista_plot" glyph. |
Bio::Graphics::Glyph::wave(3pm) | The "wave" glyph. |
Bio::Graphics::Glyph::weighted_arrow(3pm) | The "weighted arrow" glyph. |
Bio::Graphics::Glyph::whiskerplot(3pm) | The whiskerplot glyph. |
Bio::Graphics::Glyph::wiggle_box(3pm) | A generic box glyph compatible with dense "wig"data. |
Bio::Graphics::Glyph::wiggle_density(3pm) | A density plot compatible with dense "wig"data. |
Bio::Graphics::Glyph::wiggle_xyplot(3pm) | An xyplot plot compatible with dense "wig"data. |
Bio::Graphics::Glyph::xyplot(3pm) | The xyplot glyph. |
Bio::Graphics::Panel(3pm) | Generate GD images of Bio::Seq objects. |
Bio::Graphics::Pictogram(3pm) | Generate SVG output of Pictogram display for consensus motifs. |
Bio::Graphics::RendererI(3pm) | A renderer for the Bio::Graphics class that renders Bio::SeqFeature::CollectionI. |
Bio::Graphics::Util(3pm) | Non-object-oriented utilities used in Bio::Graphics modules. |
Bio::Graphics::Wiggle(3pm) | … |
Bio::Graphics::Wiggle::Loader(3pm) | … |
Bio::HandlerBaseI(3pm) | Interface class for handler methods which interact with any event-driven parsers. |
Bio::IdCollectionI(3pm) | Interface for objects with multiple identifiers. |
Bio::IdentifiableI(3pm) | Interface for objects with identifiers. |
Bio::Index::Abstract(3pm) | Abstract interface for indexing a flat file. |
Bio::Index::AbstractSeq(3pm) | Base class for AbstractSeq. |
Bio::Index::Blast(3pm) | Indexes Blast reports and supports retrieval based on query accession(s). |
Bio::Index::BlastTable(3pm) | Indexes tabular Blast reports (-m 8 or -m 9 format) and supports retrieval based on. |
Bio::Index::EMBL(3pm) | Interface for indexing (multiple) EMBL/Swissprot .dat files (i.e. flat file EMBL/Swissprot. |
Bio::Index::Fasta(3pm) | Interface for indexing (multiple) fasta files. |
Bio::Index::Fastq(3pm) | Interface for indexing (multiple) fastq files. |
Bio::Index::GenBank(3pm) | Interface for indexing one or more GenBank files (i.e. flat file GenBank format). |
Bio::Index::Hmmer(3pm) | Indexes HMMER reports and supports retreival based on query. |
Bio::Index::Qual(3pm) | Interface for indexing (multiple) fasta qual files. |
Bio::Index::Stockholm(3pm) | Interface for indexing Stockholm files. |
Bio::Index::SwissPfam(3pm) | Interface for indexing swisspfam files. |
Bio::Index::Swissprot(3pm) | Interface for indexing one or more Swissprot files. |
Bio::Installer::Clustalw(3pm) | DESCRIPTION of Object. |
Bio::Installer::EMBOSS(3pm) | DESCRIPTION of Object. |
Bio::Installer::Generic(3pm) | DESCRIPTION of Object. |
Bio::Installer::Hyphy(3pm) | DESCRIPTION of Object. |
Bio::Installer::Muscle(3pm) | DESCRIPTION of Object. |
Bio::Installer::PAML(3pm) | DESCRIPTION of Object. |
Bio::Installer::Probcons(3pm) | DESCRIPTION of Object. |
Bio::Installer::SLR(3pm) | DESCRIPTION of Object. |
Bio::Installer::TCoffee(3pm) | DESCRIPTION of Object. |
Bio::LiveSeq::AARange(3pm) | AARange abstract class for LiveSeq. |
Bio::LiveSeq::Chain(3pm) | DoubleChain DataStructure for Perl. |
Bio::LiveSeq::ChainI(3pm) | Double linked chain data structure. |
Bio::LiveSeq::DNA(3pm) | DNA object for LiveSeq. |
Bio::LiveSeq::Exon(3pm) | Range abstract class for LiveSeq. |
Bio::LiveSeq::Gene(3pm) | Range abstract class for LiveSeq. |
Bio::LiveSeq::Intron(3pm) | Range abstract class for LiveSeq. |
Bio::LiveSeq::IO::BioPerl(3pm) | Loader for LiveSeq from EMBL entries with BioPerl. |
Bio::LiveSeq::IO::Loader(3pm) | Parent Loader for LiveSeq. |
Bio::LiveSeq::Mutation(3pm) | Mutation event descriptor class. |
Bio::LiveSeq::Mutator(3pm) | Package mutating LiveSequences. |
Bio::LiveSeq::Prim_Transcript(3pm) | Prim_Transcript class for LiveSeq. |
Bio::LiveSeq::Range(3pm) | Range abstract class for LiveSeq. |
Bio::LiveSeq::Repeat_Region(3pm) | Repeat_Region class for LiveSeq. |
Bio::LiveSeq::Repeat_Unit(3pm) | Repeat_Unit class for LiveSeq. |
Bio::LiveSeq::SeqI(3pm) | Abstract sequence interface class for LiveSeq. |
Bio::LiveSeq::Transcript(3pm) | Transcript class for LiveSeq. |
Bio::LiveSeq::Translation(3pm) | Translation class for LiveSeq. |
Bio::LocatableSeq(3pm) | A Bio::PrimarySeq object with start/end points on it that can be projected into a MSA or. |
Bio::Location::Atomic(3pm) | Implementation of a Atomic Location on a Sequence. |
Bio::Location::AvWithinCoordPolicy(3pm) | Class implementing Bio::Location::CoordinatePolicy as the average for. |
Bio::Location::CoordinatePolicyI(3pm) | Abstract interface for objects implementing a certain policy of computing. |
Bio::Location::Fuzzy(3pm) | Implementation of a Location on a Sequence which has unclear start and/or end locations. |
Bio::Location::FuzzyLocationI(3pm) | Abstract interface of a Location on a Sequence which has unclear start/end. |
Bio::Location::NarrowestCoordPolicy(3pm) | Class implementing Bio::Location::CoordinatePolicy as the narrowest. |
Bio::Location::Simple(3pm) | Implementation of a Simple Location on a Sequence. |
Bio::Location::Split(3pm) | Implementation of a Location on a Sequence which has multiple locations (start/end. |
Bio::Location::SplitLocationI(3pm) | Abstract interface of a Location on a Sequence which has multiple locations. |
Bio::Location::WidestCoordPolicy(3pm) | Class implementing Bio::Location::CoordinatePolicy as the widest possible. |
Bio::LocationI(3pm) | Abstract interface of a Location on a Sequence. |
Bio::MAGE(3pm) | Container module for classes in the MAGE package: MAGE. |
Bio::MAGE::Array(3pm) | Container module for classes in the MAGE package: Array. |
Bio::MAGE::Array::Array(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::ArrayGroup(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::ArrayManufacture(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::ArrayManufactureDeviation(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::FeatureDefect(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::Fiducial(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::ManufactureLIMS(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::ManufactureLIMSBiomaterial(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::PositionDelta(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Array::ZoneDefect(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign(3pm) | Container module for classes in the MAGE package: ArrayDesign. |
Bio::MAGE::ArrayDesign::ArrayDesign(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::CompositeGroup(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::DesignElementGroup(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::FeatureGroup(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::PhysicalArrayDesign(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::ReporterGroup(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::Zone(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::ZoneGroup(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::ArrayDesign::ZoneLayout(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Association(3pm) | … |
Bio::MAGE::AuditAndSecurity(3pm) | Container module for classes in the MAGE package: AuditAndSecurity. |
Bio::MAGE::AuditAndSecurity::Audit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::AuditAndSecurity::Contact(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::AuditAndSecurity::Organization(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::AuditAndSecurity::Person(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::AuditAndSecurity::Security(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::AuditAndSecurity::SecurityGroup(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Base(3pm) | Generic base class. |
Bio::MAGE::BioAssay(3pm) | Container module for classes in the MAGE package: BioAssay. |
Bio::MAGE::BioAssay::BioAssay(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::BioAssayCreation(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::BioAssayTreatment(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::Channel(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::DerivedBioAssay(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::FeatureExtraction(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::Hybridization(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::Image(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::ImageAcquisition(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::MeasuredBioAssay(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssay::PhysicalBioAssay(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData(3pm) | Container module for classes in the MAGE package: BioAssayData. |
Bio::MAGE::BioAssayData::BioAssayData(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::BioAssayDatum(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::BioAssayDimension(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::BioAssayMap(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::BioAssayMapping(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::BioDataCube(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::BioDataTuples(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::BioDataValues(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::CompositeSequenceDimension(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::DerivedBioAssayData(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::DesignElementDimension(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::DesignElementMap(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::DesignElementMapping(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::FeatureDimension(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::MeasuredBioAssayData(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::QuantitationTypeDimension(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::QuantitationTypeMap(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::QuantitationTypeMapping(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::ReporterDimension(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioAssayData::Transformation(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioEvent(3pm) | Container module for classes in the MAGE package: BioEvent. |
Bio::MAGE::BioEvent::BioEvent(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioEvent::Map(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial(3pm) | Container module for classes in the MAGE package: BioMaterial. |
Bio::MAGE::BioMaterial::BioMaterial(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial::BioMaterialMeasurement(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial::BioSample(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial::BioSource(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial::Compound(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial::CompoundMeasurement(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial::LabeledExtract(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioMaterial::Treatment(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioSequence(3pm) | Container module for classes in the MAGE package: BioSequence. |
Bio::MAGE::BioSequence::BioSequence(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioSequence::SeqFeature(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioSequence::SeqFeatureLocation(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BioSequence::SequencePosition(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::BQS(3pm) | Container module for classes in the MAGE package: BQS. |
Bio::MAGE::BQS::BibliographicReference(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Describable(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Description(3pm) | Container module for classes in the MAGE package: Description. |
Bio::MAGE::Description::Database(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Description::DatabaseEntry(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Description::Description(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Description::ExternalReference(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Description::OntologyEntry(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement(3pm) | Container module for classes in the MAGE package: DesignElement. |
Bio::MAGE::DesignElement::CompositeCompositeMap(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::CompositePosition(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::CompositeSequence(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::DesignElement(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::Feature(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::FeatureInformation(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::FeatureLocation(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::FeatureReporterMap(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::MismatchInformation(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::Position(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::Reporter(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::ReporterCompositeMap(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::DesignElement::ReporterPosition(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Experiment(3pm) | Container module for classes in the MAGE package: Experiment. |
Bio::MAGE::Experiment::Experiment(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Experiment::ExperimentalFactor(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Experiment::ExperimentDesign(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Experiment::FactorValue(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Extendable(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::HigherLevelAnalysis(3pm) | Container module for classes in the MAGE package: HigherLevelAnalysis. |
Bio::MAGE::HigherLevelAnalysis::BioAssayDataCluster(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::HigherLevelAnalysis::Node(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::HigherLevelAnalysis::NodeContents(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::HigherLevelAnalysis::NodeValue(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Identifiable(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement(3pm) | Container module for classes in the MAGE package: Measurement. |
Bio::MAGE::Measurement::ConcentrationUnit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::DistanceUnit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::MassUnit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::Measurement(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::QuantityUnit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::TemperatureUnit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::TimeUnit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::Unit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Measurement::VolumeUnit(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::NameValueType(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol(3pm) | Container module for classes in the MAGE package: Protocol. |
Bio::MAGE::Protocol::Hardware(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::HardwareApplication(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::Parameter(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::Parameterizable(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::ParameterizableApplication(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::ParameterValue(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::Protocol(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::ProtocolApplication(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::Software(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::Protocol::SoftwareApplication(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType(3pm) | Container module for classes in the MAGE package: QuantitationType. |
Bio::MAGE::QuantitationType::ConfidenceIndicator(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::DerivedSignal(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::Error(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::ExpectedValue(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::Failed(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::MeasuredSignal(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::PresentAbsent(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::PValue(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::QuantitationType(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::Ratio(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::SpecializedQuantitationType(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::QuantitationType::StandardQuantitationType(3pm) | Class for the MAGE-OM API. |
Bio::MAGE::SQLUtils(3pm) | A module for exporting MAGE-OM objects to a database. |
Bio::MAGE::Tools::MGEDOntologyClassEntry(3pm) | … |
Bio::MAGE::Tools::MGEDOntologyEntry(3pm) | … |
Bio::MAGE::Tools::MGEDOntologyHelper(3pm) | … |
Bio::MAGE::Tools::MGEDOntologyPropertyEntry(3pm) | … |
Bio::MAGE::XML::Handler(3pm) | … |
Bio::MAGE::XML::Handler::ObjectHandler::SQL(3pm) | DESCRIPTION of Object. |
Bio::MAGE::XML::Handler::ObjectHandlerI(3pm) | Abstract class for processing Bio::MAGE objects. |
Bio::MAGE::XML::Reader(3pm) | A module for exporting MAGE-ML. |
Bio::MAGE::XML::Writer(3pm) | A module for exporting MAGE-ML. |
Bio::Map::Clone(3pm) | An central map object representing a clone. |
Bio::Map::Contig(3pm) | A MapI implementation handling the contigs of a Physical Map (such as FPC). |
Bio::Map::CytoMap(3pm) | A Bio::MapI compliant map implementation handling cytogenic bands. |
Bio::Map::CytoMarker(3pm) | An object representing a marker. |
Bio::Map::CytoPosition(3pm) | Marker class with cytogenetic band storing attributes. |
Bio::Map::EntityI(3pm) | An Entity Interface. |
Bio::Map::FPCMarker(3pm) | An central map object representing a marker. |
Bio::Map::Gene(3pm) | An gene modelled as a mappable element. |
Bio::Map::GeneMap(3pm) | A MapI implementation to represent the area around a gene. |
Bio::Map::GenePosition(3pm) | A typed position, suitable for modelling the various. |
Bio::Map::GeneRelative(3pm) | Represents being relative to named sub-regions of a. |
Bio::Map::LinkageMap(3pm) | A representation of a genetic linkage map. |
Bio::Map::LinkagePosition(3pm) | Create a Position for a Marker that will be placed on. |
Bio::Map::MapI(3pm) | Interface for describing Map objects in bioperl. |
Bio::Map::Mappable(3pm) | An object representing a generic map element that can have multiple locations in several. |
Bio::Map::MappableI(3pm) | An object that can be placed in a map. |
Bio::Map::Marker(3pm) | An central map object representing a generic marker that can have multiple location in. |
Bio::Map::MarkerI(3pm) | Interface for basic marker functionality. |
Bio::Map::Microsatellite(3pm) | An object representing a Microsatellite marker. |
Bio::Map::OrderedPosition(3pm) | Abstracts the notion of a member of an ordered list of markers. Each marker. |
Bio::Map::OrderedPositionWithDistance(3pm) | Abstracts the notion of a member of an ordered list of markers. |
Bio::Map::Physical(3pm) | A class for handling a Physical Map (such as FPC). |
Bio::Map::Position(3pm) | A single position of a Marker, or the range over which. |
Bio::Map::PositionHandler(3pm) | A Position Handler Implementation. |
Bio::Map::PositionHandlerI(3pm) | A Position Handler Interface. |
Bio::Map::PositionI(3pm) | Abstracts the notion of a position having a value in the context of a marker and a Map. |
Bio::Map::PositionWithSequence(3pm) | A position with a sequence. |
Bio::Map::Prediction(3pm) | An object representing the predictions of something that can have multiple locations in. |
Bio::Map::Relative(3pm) | Represents what a Position's coordiantes are relative to. |
Bio::Map::RelativeI(3pm) | Interface for describing what a Position's coordiantes are. |
Bio::Map::SimpleMap(3pm) | A MapI implementation handling the basics of a Map. |
Bio::Map::TranscriptionFactor(3pm) | A transcription factor modelled as a mappable element. |
Bio::MapIO(3pm) | A Map Factory object. |
Bio::MapIO::fpc(3pm) | A FPC Map reader. |
Bio::MapIO::mapmaker(3pm) | A Mapmaker Map reader. |
Bio::Matrix::Generic(3pm) | A generic matrix implementation. |
Bio::Matrix::IO(3pm) | A factory for Matrix parsing. |
Bio::Matrix::IO::mlagan(3pm) | A parser for the mlagan substitution matrix. |
Bio::Matrix::IO::phylip(3pm) | A parser for PHYLIP distance matricies. |
Bio::Matrix::IO::scoring(3pm) | A parser for PAM/BLOSUM matricies. |
Bio::Matrix::MatrixI(3pm) | An interface for describing a Matrix. |
Bio::Matrix::Mlagan(3pm) | A generic matrix with mlagan fields. |
Bio::Matrix::PhylipDist(3pm) | A Phylip Distance Matrix object. |
Bio::Matrix::PSM::InstanceSite(3pm) | A PSM site occurrence. |
Bio::Matrix::PSM::InstanceSiteI(3pm) | InstanceSite interface, holds an instance of a PSM. |
Bio::Matrix::PSM::IO(3pm) | PSM parser. |
Bio::Matrix::PSM::IO::mast(3pm) | PSM mast parser implementation. |
Bio::Matrix::PSM::IO::masta(3pm) | Motif fasta format parser. |
Bio::Matrix::PSM::IO::meme(3pm) | PSM meme parser implementation. |
Bio::Matrix::PSM::IO::psiblast(3pm) | PSM psiblast parser. |
Bio::Matrix::PSM::IO::transfac(3pm) | PSM transfac parser. |
Bio::Matrix::PSM::ProtMatrix(3pm) | SiteMatrixI implementation, holds a position scoring matrix (or position weight. |
Bio::Matrix::PSM::ProtPsm(3pm) | Handle combination of site matricies. |
Bio::Matrix::PSM::Psm(3pm) | Handle combination of site matricies. |
Bio::Matrix::PSM::PsmHeader(3pm) | PSM mast parser implementation. |
Bio::Matrix::PSM::PsmHeaderI(3pm) | Handles the header data from a PSM file. |
Bio::Matrix::PSM::PsmI(3pm) | Abstract interface to handler of site matricies. |
Bio::Matrix::PSM::SiteMatrix(3pm) | SiteMatrixI implementation, holds a position scoring matrix (or position weight. |
Bio::Matrix::PSM::SiteMatrixI(3pm) | SiteMatrixI implementation, holds a position scoring matrix (or position. |
Bio::Matrix::Scoring(3pm) | Object which can hold scoring matrix information. |
Bio::MolEvol::CodonModel(3pm) | Codon Evolution Models. |
Bio::Nexml::Factory(3pm) | A factory module for creating BioPerl and Bio::Phylo objects from/to nexml documents. |
Bio::NexmlIO(3pm) | Stream handler for NeXML documents. |
Bio::Ontology::DocumentRegistry(3pm) | Keep track of where to find ontologies. Allows lookups by name. |
Bio::Ontology::GOterm(3pm) | Representation of GO terms. |
Bio::Ontology::InterProTerm(3pm) | Implementation of InterProI term interface. |
Bio::Ontology::OBOEngine(3pm) | An Ontology Engine for OBO style flat file format from the Gene Ontology Consortium. |
Bio::Ontology::OBOterm(3pm) | Representation of OBO terms. |
Bio::Ontology::Ontology(3pm) | Standard implementation of an Ontology. |
Bio::Ontology::OntologyEngineI(3pm) | Interface a minimal Ontology implementation should satisfy. |
Bio::Ontology::OntologyI(3pm) | Interface for an ontology implementation. |
Bio::Ontology::OntologyStore(3pm) | A repository of ontologies. |
Bio::Ontology::Path(3pm) | A path for an ontology term graph. |
Bio::Ontology::PathI(3pm) | Interface for a path between ontology terms. |
Bio::Ontology::Relationship(3pm) | A relationship for an ontology. |
Bio::Ontology::RelationshipFactory(3pm) | Instantiates a new Bio::Ontology::RelationshipI (or derived class). |
Bio::Ontology::RelationshipI(3pm) | Interface for a relationship between ontology terms. |
Bio::Ontology::RelationshipType(3pm) | A relationship type for an ontology. |
Bio::Ontology::SimpleGOEngine::GraphAdaptor(3pm) | Graph adaptor for Bio::Ontology::SimpleGOEngine. |
Bio::Ontology::SimpleOntologyEngine(3pm) | Implementation of OntologyEngineI interface. |
Bio::Ontology::Term(3pm) | Implementation of the interface for ontology terms. |
Bio::Ontology::TermFactory(3pm) | Instantiates a new Bio::Ontology::TermI (or derived class) through a factory. |
Bio::Ontology::TermI(3pm) | Interface for ontology terms. |
Bio::OntologyIO(3pm) | Parser factory for Ontology formats. |
Bio::OntologyIO::dagflat(3pm) | A base class parser for GO flat-file type formats. |
Bio::OntologyIO::goflat(3pm) | A parser for the Gene Ontology flat-file format. |
Bio::OntologyIO::Handlers::BaseSAXHandler(3pm) | Base class for SAX Handlers. |
Bio::OntologyIO::Handlers::InterPro_BioSQL_Handler(3pm) | Parse an InterPro XML file and persist the resulting. |
Bio::OntologyIO::Handlers::InterProHandler(3pm) | XML handler class for InterProParser. |
Bio::OntologyIO::InterProParser(3pm) | Parser for InterPro xml files. |
Bio::OntologyIO::obo(3pm) | Parser for OBO flat-file format. |
Bio::OntologyIO::simplehierarchy(3pm) | A base class parser for simple hierarchy-by-indentation. |
Bio::OntologyIO::soflat(3pm) | A parser for the Sequence Ontology flat-file format. |
Bio::ParameterBaseI(3pm) | Simple interface class for any parameter-related data such as IDs, database name,. |
Bio::Perl(3pm) | Functional access to BioPerl for people who don't know objects. |
Bio::Phenotype::Correlate(3pm) | Representation of a correlating phenotype in a given species. |
Bio::Phenotype::Measure(3pm) | Representation of context/value(-range)/unit triplets. |
Bio::Phenotype::MeSH::Term(3pm) | A MeSH term. |
Bio::Phenotype::MeSH::Twig(3pm) | Context for a MeSH term. |
Bio::Phenotype::OMIM::MiniMIMentry(3pm) | Representation of a Mini MIM entry. |
Bio::Phenotype::OMIM::OMIMentry(3pm) | Represents OMIM (Online Mendelian Inheritance in Man) database entries. |
Bio::Phenotype::OMIM::OMIMentryAllelicVariant(3pm) | Representation of a allelic variant of the OMIM database. |
Bio::Phenotype::OMIM::OMIMparser(3pm) | Parser for the OMIM database. |
Bio::Phenotype::Phenotype(3pm) | A class for modeling phenotypes. |
Bio::Phenotype::PhenotypeI(3pm) | An interface for classes modeling phenotypes. |
Bio::PhyloNetwork(3pm) | Module to compute with Phylogenetic Networks. |
Bio::PhyloNetwork::Factory(3pm) | Module to sequentially generate Phylogenetic Networks. |
Bio::PhyloNetwork::FactoryX(3pm) | Module to sequentially generate Phylogenetic Networks. |
Bio::PhyloNetwork::GraphViz(3pm) | Interface between PhyloNetwork and GraphViz. |
Bio::PhyloNetwork::muVector(3pm) | Module to compute with vectors of arbitrary dimension. |
Bio::PhyloNetwork::RandomFactory(3pm) | Module to generate random Phylogenetic Networks. |
Bio::PhyloNetwork::TreeFactory(3pm) | Module to sequentially generate Phylogenetic Trees. |
Bio::PhyloNetwork::TreeFactoryMulti(3pm) | Module to sequentially generate Phylogenetic Trees. |
Bio::PhyloNetwork::TreeFactoryX(3pm) | Module to sequentially generate Phylogenetic Trees. |
Bio::PopGen::Genotype(3pm) | An implementation of GenotypeI which is just an allele container. |
Bio::PopGen::GenotypeI(3pm) | A marker and alleles for a specific individual. |
Bio::PopGen::HtSNP(3pm) | … |
Bio::PopGen::Individual(3pm) | An implementation of an Individual who has Genotype or Sequence Results. |
Bio::PopGen::IndividualI(3pm) | An individual who has Genotype or Sequence Results. |
Bio::PopGen::IO(3pm) | Input individual,marker,allele information. |
Bio::PopGen::IO::csv(3pm) | … |
Bio::PopGen::IO::hapmap(3pm) | A parser for HapMap output data. |
Bio::PopGen::IO::phase(3pm) | A parser for Phase format data. |
Bio::PopGen::IO::prettybase(3pm) | Extract individual allele data from PrettyBase format. |
Bio::PopGen::Marker(3pm) | A genetic marker which one uses to generate genotypes. |
Bio::PopGen::MarkerI(3pm) | A Population Genetic conceptual marker. |
Bio::PopGen::PopStats(3pm) | A collection of methods for calculating statistics about a population or sets of. |
Bio::PopGen::Population(3pm) | A population of individuals. |
Bio::PopGen::PopulationI(3pm) | Interface for Populations. |
Bio::PopGen::Simulation::Coalescent(3pm) | A Coalescent simulation factory. |
Bio::PopGen::Simulation::GeneticDrift(3pm) | A simple genetic drift simulation. |
Bio::PopGen::Statistics(3pm) | Population Genetics statistical tests. |
Bio::PopGen::TagHaplotype(3pm) | Haplotype tag object. |
Bio::PopGen::Utilities(3pm) | Utilities for working with PopGen data and objects. |
Bio::PrimarySeq(3pm) | Bioperl lightweight sequence object. |
Bio::PrimarySeqI(3pm) | Interface definition for a Bio::PrimarySeq. |
Bio::PrimerDesigner(3pm) | Design PCR Primers using primer3 and epcr. |
Bio::PrimerDesigner::epcr(3pm) | A class for accessing the epcr binary. |
Bio::PrimerDesigner::ispcr(3pm) | A class for accessing the isPcr (in-silico PCR) binary. |
Bio::PrimerDesigner::primer3(3pm) | An class for accessing primer3. |
Bio::PrimerDesigner::Remote(3pm) | A class for remote access to Bio::PrimerDesigner. |
Bio::PrimerDesigner::Result(3pm) | A class for handling primer design or validation results. |
Bio::PrimerDesigner::Tables(3pm) | … |
Bio::PullParserI(3pm) | A base module for fast 'pull' parsing. |
Bio::Range(3pm) | Pure perl RangeI implementation. |
Bio::RangeI(3pm) | Range interface. |
Bio::Restriction::Analysis(3pm) | Cutting sequences with restriction enzymes. |
Bio::Restriction::Enzyme(3pm) | A single restriction endonuclease (cuts DNA at specific locations). |
Bio::Restriction::Enzyme::MultiCut(3pm) | A single restriction endonuclease. |
Bio::Restriction::Enzyme::MultiSite(3pm) | A single restriction endonuclease. |
Bio::Restriction::EnzymeCollection(3pm) | Set of restriction endonucleases. |
Bio::Restriction::EnzymeI(3pm) | Interface class for restriction endonuclease. |
Bio::Restriction::IO(3pm) | Handler for sequence variation IO Formats. |
Bio::Restriction::IO::bairoch(3pm) | Bairoch enzyme set. |
Bio::Restriction::IO::base(3pm) | Base enzyme set. |
Bio::Restriction::IO::itype2(3pm) | Itype2 enzyme set. |
Bio::Restriction::IO::prototype(3pm) | Prototype enzyme set. |
Bio::Restriction::IO::withrefm(3pm) | Withrefm enzyme set. |
Bio::Roary(3pm) | Create a pan genome. |
Bio::Roary::AccessoryBinaryFasta(3pm) | Output a FASTA file which represents the binary presence and absence of. |
Bio::Roary::AccessoryClustering(3pm) | Take an a clusters file from CD-hit and the fasta file and output a fasta. |
Bio::Roary::AnalyseGroups(3pm) | Take in a groups file and the original FASTA files and create plots and stats. |
Bio::Roary::AnnotateGroups(3pm) | Take in a group file and associated GFF files for the isolates and update the. |
Bio::Roary::AssemblyStatistics(3pm) | Given a spreadsheet of gene presence and absence calculate some statistics. |
Bio::Roary::BedFromGFFRole(3pm) | A role to create a bed file from a gff. |
Bio::Roary::ChunkFastaFile(3pm) | Take in a FASTA file and chunk it up into smaller pieces. |
Bio::Roary::ClustersRole(3pm) | A role to read a clusters file from CD hit. |
Bio::Roary::CombinedProteome(3pm) | Take in multiple FASTA sequences containing proteomes and concat them together. |
Bio::Roary::CommandLine::AssemblyStatistics(3pm) | Given a spreadsheet of gene presence and absence calculate some. |
Bio::Roary::CommandLine::Common(3pm) | Common command line settings. |
Bio::Roary::CommandLine::CreatePanGenome(3pm) | Take in FASTA files of proteins and cluster them. |
Bio::Roary::CommandLine::ExtractProteomeFromGff(3pm) | Take in GFF files and output the proteome. |
Bio::Roary::CommandLine::GeneAlignmentFromNucleotides(3pm) | Take in a multifasta file of nucleotides, convert to. |
Bio::Roary::CommandLine::IterativeCdhit(3pm) | Iteratively run cdhit. |
Bio::Roary::CommandLine::ParallelAllAgainstAllBlastp(3pm) | Take in a FASTA file of proteins and blast against. |
Bio::Roary::CommandLine::QueryRoary(3pm) | Take in a groups file and the protein fasta files and output selected. |
Bio::Roary::CommandLine::Roary(3pm) | Take in FASTA files of proteins and cluster them. |
Bio::Roary::CommandLine::RoaryCoreAlignment(3pm) | Take in the group statistics spreadsheet and the location of the. |
Bio::Roary::CommandLine::RoaryPostAnalysis(3pm) | Perform the post analysis on the pan genome. |
Bio::Roary::CommandLine::RoaryReorderSpreadsheet(3pm) | Take in a tree and a spreadsheet and output a reordered. |
Bio::Roary::CommandLine::TransferAnnotationToGroups(3pm) | Take in a groups file and a set of GFF files and. |
Bio::Roary::CommandLine::UniqueGenesPerSample(3pm) | Take in the clustered file and produce a sorted file with the. |
Bio::Roary::ContigsToGeneIDsFromGFF(3pm) | Parse a GFF and efficiently and extract ordered gene ids on each contig. |
Bio::Roary::Exceptions(3pm) | Exceptions for input data. |
Bio::Roary::External::Blastp(3pm) | Wrapper around NCBIs blastp command. |
Bio::Roary::External::Cdhit(3pm) | Wrapper to run cd-hit. |
Bio::Roary::External::CheckTools(3pm) | Check external executables are available and are the correct version. |
Bio::Roary::External::Fasttree(3pm) | Wrapper to run Fasttree. |
Bio::Roary::External::GeneAlignmentFromNucleotides(3pm) | Take in multi-FASTA files of nucleotides and align each. |
Bio::Roary::External::IterativeCdhit(3pm) | Iteratively run CDhit. |
Bio::Roary::External::Mafft(3pm) | Wrapper to run mafft. |
Bio::Roary::External::Makeblastdb(3pm) | Wrapper around NCBIs makeblastdb command. |
Bio::Roary::External::Mcl(3pm) | Wrapper around MCL which takes in blast results and outputs clustered results. |
Bio::Roary::External::PostAnalysis(3pm) | Perform the post analysis. |
Bio::Roary::External::Prank(3pm) | Wrapper to run prank. |
Bio::Roary::ExtractCoreGenesFromSpreadsheet(3pm) | Take in a spreadsheet produced by the pipeline and identify the. |
Bio::Roary::ExtractProteomeFromGFF(3pm) | Take in a GFF file and create protein sequences in FASTA format. |
Bio::Roary::ExtractProteomeFromGFFs(3pm) | Take in GFF files and create protein sequences in FASTA format. |
Bio::Roary::FilterFullClusters(3pm) | Take an a clusters file from CD-hit and the fasta file and output a fasta. |
Bio::Roary::FilterUnknownsFromFasta(3pm) | Take in fasta files, remove sequences with too many unknowns and return. |
Bio::Roary::GeneNamesFromGFF(3pm) | Parse a GFF and efficiently extract ID -> Gene Name. |
Bio::Roary::GroupLabels(3pm) | Add labels to the groups. |
Bio::Roary::GroupStatistics(3pm) | Add labels to the groups. |
Bio::Roary::InflateClusters(3pm) | Take the clusters file from cd-hit and use it to inflate the output of MCL. |
Bio::Roary::IterativeCdhit(3pm) | Run CDhit iteratively with reducing thresholds, removing full clusters each time. |
Bio::Roary::JobRunner::Local(3pm) | Execute a set of commands locally. |
Bio::Roary::JobRunner::Parallel(3pm) | Use GNU Parallel. |
Bio::Roary::JobRunner::Role(3pm) | A role to add job runner functionality. |
Bio::Roary::LookupGeneFiles(3pm) | Take in an ordering of genes and a directory and return an ordered list of file. |
Bio::Roary::MergeMultifastaAlignments(3pm) | Merge multifasta alignment files with equal numbers of sequences. |
Bio::Roary::OrderGenes(3pm) | Take in GFF files and create a matrix of what genes are beside what other genes. |
Bio::Roary::Output::BlastIdentityFrequency(3pm) | Take in blast results and find the percentage identity graph. |
Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL(3pm) | Create an embl file for the header with locations of. |
Bio::Roary::Output::DifferenceBetweenSets(3pm) | Given two sets of isolates and a group file, output whats unique. |
Bio::Roary::Output::EmblGroups(3pm) | Create a tab/embl file with the features for drawing pretty pictures. |
Bio::Roary::Output::EMBLHeaderCommon(3pm) | A role containing some common methods for embl header files. |
Bio::Roary::Output::GroupMultifasta(3pm) | Take in a group and create a multifasta file. |
Bio::Roary::Output::GroupsMultifastaNucleotide(3pm) | Take in a GFF files and a groups file and output one. |
Bio::Roary::Output::GroupsMultifastaProtein(3pm) | Take a multifasta nucleotide file and output it as proteins. |
Bio::Roary::Output::GroupsMultifastas(3pm) | Take in a list of groups and create multifastas files for each group. |
Bio::Roary::Output::GroupsMultifastasNucleotide(3pm) | Take in a set of GFF files and a groups file and output one. |
Bio::Roary::Output::NumberOfGroups(3pm) | Create raw output files of group counts for turning into plots. |
Bio::Roary::Output::QueryGroups(3pm) | Output the groups of the union of a set of input isolates. |
Bio::Roary::ParallelAllAgainstAllBlast(3pm) | Run all against all blast in parallel. |
Bio::Roary::ParseGFFAnnotationRole(3pm) | A role for parsing a gff file efficiently. |
Bio::Roary::PostAnalysis(3pm) | Post analysis of pan genomes. |
Bio::Roary::PrepareInputFiles(3pm) | Take in a mixture of FASTA and GFF input files and output FASTA proteomes only. |
Bio::Roary::PresenceAbsenceMatrix(3pm) | Create a matrix with presence and absence. |
Bio::Roary::QC::Report(3pm) | Generate a report based on kraken output. |
Bio::Roary::ReformatInputGFFs(3pm) | Take in gff files and add suffix where a gene id is seen twice. |
Bio::Roary::ReorderSpreadsheet(3pm) | Take in a tree file and a spreadsheet and output a spreadsheet with reordered. |
Bio::Roary::SampleOrder(3pm) | Take in a tree file and return an ordering of the samples. |
Bio::Roary::SequenceLengths(3pm) | Take in a fasta file and create a hash with the length of each sequence. |
Bio::Roary::SortFasta(3pm) | Sort a fasta file by name. |
Bio::Roary::SplitGroups(3pm) | Split groups. |
Bio::Roary::SpreadsheetRole(3pm) | Read and write a spreadsheet. |
Bio::Roary::UniqueGenesPerSample(3pm) | Take in the clustered file and produce a sorted file with the frequency of. |
Bio::Root::Build(3pm) | … |
Bio::Root::Exception(3pm) | … |
Bio::Root::HTTPget(3pm) | Module for fallback HTTP get operations when LWP:: is unavailable. |
Bio::Root::IO(3pm) | … |
Bio::Root::Root(3pm) | … |
Bio::Root::RootI(3pm) | … |
Bio::Root::Storable(3pm) | … |
Bio::Root::Test(3pm) | … |
Bio::Root::TestObject(3pm) | An implementation of TestInterface. |
Bio::Root::Utilities(3pm) | … |
Bio::Root::Version(3pm) | … |
Bio::SCF(3pm) | Perl extension for reading and writing SCF sequence files. |
Bio::Search::BlastStatistics(3pm) | An object for Blast statistics. |
Bio::Search::BlastUtils(3pm) | Utility functions for Bio::Search:: BLAST objects. |
Bio::Search::DatabaseI(3pm) | Interface for a database used in a sequence search. |
Bio::Search::GenericDatabase(3pm) | Generic implementation of Bio::Search::DatabaseI. |
Bio::Search::GenericStatistics(3pm) | An object for statistics. |
Bio::Search::Hit::BlastHit(3pm) | Blast-specific subclass of Bio::Search::Hit::GenericHit. |
Bio::Search::Hit::BlastPullHit(3pm) | A parser and hit object for BLASTN hits. |
Bio::Search::Hit::Fasta(3pm) | Hit object specific for Fasta-generated hits. |
Bio::Search::Hit::GenericHit(3pm) | A generic implementation of the Bio::Search::Hit::HitI interface. |
Bio::Search::Hit::HitFactory(3pm) | A factory to create Bio::Search::Hit::HitI objects. |
Bio::Search::Hit::HitI(3pm) | Interface for a hit in a similarity search result. |
Bio::Search::Hit::hmmer3Hit(3pm) | DESCRIPTION of Object. |
Bio::Search::Hit::HMMERHit(3pm) | A Hit module for HMMER hits. |
Bio::Search::Hit::HmmpfamHit(3pm) | A parser and hit object for hmmpfam hits. |
Bio::Search::Hit::ModelHit(3pm) | A model-based implementation of the Bio::Search::Hit::HitI interface. |
Bio::Search::Hit::PsiBlastHit(3pm) | Bioperl BLAST Hit object. |
Bio::Search::Hit::PullHitI(3pm) | Bio::Search::Hit::HitI interface for pull parsers. |
Bio::Search::HSP::BlastHSP(3pm) | Bioperl BLAST High-Scoring Pair object. |
Bio::Search::HSP::BlastPullHSP(3pm) | A parser and HSP object for BlastN hsps. |
Bio::Search::HSP::FastaHSP(3pm) | HSP object for FASTA specific data. |
Bio::Search::HSP::GenericHSP(3pm) | A "Generic" implementation of a High Scoring Pair. |
Bio::Search::HSP::HMMERHSP(3pm) | A HSP object for HMMER results. |
Bio::Search::HSP::HmmpfamHSP(3pm) | A parser and HSP object for hmmpfam hsps. |
Bio::Search::HSP::HSPFactory(3pm) | A factory to create Bio::Search::HSP::HSPI objects. |
Bio::Search::HSP::HSPI(3pm) | Interface for a High Scoring Pair in a similarity search result. |
Bio::Search::HSP::ModelHSP(3pm) | A HSP object for model-based searches. |
Bio::Search::HSP::PsiBlastHSP(3pm) | Bioperl BLAST High-Scoring Pair object. |
Bio::Search::HSP::PSLHSP(3pm) | A HSP for PSL output. |
Bio::Search::HSP::PullHSPI(3pm) | Bio::Search::HSP::HSPI interface for pull parsers. |
Bio::Search::HSP::WABAHSP(3pm) | HSP object suitable for describing WABA alignments. |
Bio::Search::Iteration::GenericIteration(3pm) | A generic implementation of the Bio::Search::Iteration::IterationI. |
Bio::Search::Iteration::IterationI(3pm) | Abstract interface to an iteration from an iterated search result, such. |
Bio::Search::Processor(3pm) | DESCRIPTION of Object. |
Bio::Search::Result::BlastPullResult(3pm) | A parser and result object for BLASTN. |
Bio::Search::Result::BlastResult(3pm) | Blast-specific subclass of Bio::Search::Result::GenericResult. |
Bio::Search::Result::CrossMatchResult(3pm) | CrossMatch-specific subclass of Bio::Search::Result::GenericResult. |
Bio::Search::Result::GenericResult(3pm) | Generic Implementation of Bio::Search::Result::ResultI interface. |
Bio::Search::Result::hmmer3Result(3pm) | DESCRIPTION of Object. |
Bio::Search::Result::HMMERResult(3pm) | A Result object for HMMER results. |
Bio::Search::Result::HmmpfamResult(3pm) | A parser and result object for hmmpfam. |
Bio::Search::Result::INFERNALResult(3pm) | A Result object for INFERNAL results. |
Bio::Search::Result::PullResultI(3pm) | Bio::Search::Result::ResultI interface for. |
Bio::Search::Result::ResultFactory(3pm) | A factory to create Bio::Search::Result::ResultI objects. |
Bio::Search::Result::ResultI(3pm) | Abstract interface to Search Result objects. |
Bio::Search::Result::WABAResult(3pm) | Result object for WABA alignment output. |
Bio::Search::SearchUtils(3pm) | Utility functions for Bio::Search:: objects. |
Bio::Search::StatisticsI(3pm) | A Base object for statistics. |
Bio::Search::Tiling::MapTileUtils(3pm) | Utilities for manipulating closed intervals for an HSP tiling algorithm. |
Bio::Search::Tiling::MapTiling(3pm) | An implementation of an HSP tiling algorithm, with methods to obtain. |
Bio::Search::Tiling::TilingI(3pm) | Abstract interface for an HSP tiling module. |
Bio::SearchDist(3pm) | A perl wrapper around Sean Eddy's histogram object. |
Bio::SearchIO(3pm) | Driver for parsing Sequence Database Searches (BLAST, FASTA, ...). |
Bio::SearchIO::axt(3pm) | A parser for axt format reports. |
Bio::SearchIO::blast(3pm) | Event generator for event based parsing of blast reports. |
Bio::SearchIO::blast_pull(3pm) | A parser for BLAST output. |
Bio::SearchIO::blasttable(3pm) | Driver module for SearchIO for parsing NCBI -m 8/9 format. |
Bio::SearchIO::cross_match(3pm) | CrossMatch-specific subclass of Bio::SearchIO. |
Bio::SearchIO::erpin(3pm) | SearchIO-based ERPIN parser. |
Bio::SearchIO::EventHandlerI(3pm) | An abstract Event Handler for Search Result parsing. |
Bio::SearchIO::exonerate(3pm) | Parser for Exonerate. |
Bio::SearchIO::fasta(3pm) | A SearchIO parser for FASTA results. |
Bio::SearchIO::FastHitEventBuilder(3pm) | Event Handler for SearchIO events. |
Bio::SearchIO::gmap_f9(3pm) | Event generator for parsing gmap reports (Z format). |
Bio::SearchIO::hmmer(3pm) | A parser for HMMER2 and HMMER3 output (hmmscan, hmmsearch, hmmpfam). |
Bio::SearchIO::hmmer2(3pm) | A parser for HMMER output (hmmpfam, hmmsearch). |
Bio::SearchIO::hmmer3(3pm) | … |
Bio::SearchIO::hmmer_pull(3pm) | A parser for HMMER output. |
Bio::SearchIO::infernal(3pm) | SearchIO-based Infernal parser. |
Bio::SearchIO::IteratedSearchResultEventBuilder(3pm) | Event Handler for SearchIO events. |
Bio::SearchIO::megablast(3pm) | A driver module for Bio::SearchIO to parse megablast reports (format 0). |
Bio::SearchIO::psl(3pm) | A parser for PSL output (UCSC). |
Bio::SearchIO::rnamotif(3pm) | SearchIO-based RNAMotif parser. |
Bio::SearchIO::SearchResultEventBuilder(3pm) | Event Handler for SearchIO events. |
Bio::SearchIO::SearchWriterI(3pm) | Interface for outputting parsed Search results. |
Bio::SearchIO::sim4(3pm) | Parser for Sim4 alignments. |
Bio::SearchIO::waba(3pm) | SearchIO parser for Jim Kent WABA program alignment output. |
Bio::SearchIO::wise(3pm) | Parsing of wise output as alignments. |
Bio::SearchIO::Writer::GbrowseGFF(3pm) | Interface for outputting parsed search results in Gbrowse GFF format. |
Bio::SearchIO::Writer::HitTableWriter(3pm) | Tab-delimited data for Bio::Search::Hit::HitI objects. |
Bio::SearchIO::Writer::HSPTableWriter(3pm) | Tab-delimited data for Bio::Search::HSP::HSPI objects. |
Bio::SearchIO::Writer::HTMLResultWriter(3pm) | Write a Bio::Search::ResultI in HTML. |
Bio::SearchIO::Writer::ResultTableWriter(3pm) | Outputs tab-delimited data for each Bio::Search::Result::ResultI. |
Bio::SearchIO::Writer::TextResultWriter(3pm) | Object to implement writing a Bio::Search::ResultI in Text. |
Bio::Seq(3pm) | Sequence object, with features. |
Bio::Seq::BaseSeqProcessor(3pm) | Base implementation for a SequenceProcessor. |
Bio::Seq::EncodedSeq(3pm) | Subtype of Bio::LocatableSeq to store DNA that encodes a protein. |
Bio::Seq::LargeLocatableSeq(3pm) | LocatableSeq object that stores sequence as files in the tempdir. |
Bio::Seq::LargePrimarySeq(3pm) | PrimarySeq object that stores sequence as files in the tempdir (as found by. |
Bio::Seq::LargeSeq(3pm) | SeqI compliant object that stores sequence as files in /tmp. |
Bio::Seq::LargeSeqI(3pm) | Interface class for sequences that cache their residues in a temporary file. |
Bio::Seq::Meta(3pm) | Generic superclass for sequence objects with residue-based meta information. |
Bio::Seq::Meta::Array(3pm) | Array-based generic implementation of a sequence class with residue-based meta. |
Bio::Seq::MetaI(3pm) | Interface for sequence objects with residue-based meta information. |
Bio::Seq::PrimaryQual(3pm) | Bioperl lightweight Quality Object. |
Bio::Seq::PrimedSeq(3pm) | A sequence and a pair of primers matching on it. |
Bio::Seq::QualI(3pm) | Interface definition for a Bio::Seq::Qual. |
Bio::Seq::Quality(3pm) | Implementation of sequence with residue quality. |
Bio::Seq::RichSeq(3pm) | Module implementing a sequence created from a rich sequence database entry. |
Bio::Seq::RichSeqI(3pm) | Interface for sequences from rich data sources, mostly databases. |
Bio::Seq::SeqBuilder(3pm) | Configurable object builder for sequence stream parsers. |
Bio::Seq::SeqFactory(3pm) | Instantiation of generic Bio::PrimarySeqI (or derived) objects through a factory. |
Bio::Seq::SeqFastaSpeedFactory(3pm) | Rapid creation of Bio::Seq objects through a factory. |
Bio::Seq::SequenceTrace(3pm) | Bioperl object packaging a sequence with its trace. |
Bio::Seq::SeqWithQuality(3pm) | Bioperl object packaging a sequence with its quality. Deprecated class, use. |
Bio::Seq::SimulatedRead(3pm) | Read with sequencing errors taken from a reference sequence. |
Bio::Seq::TraceI(3pm) | Interface definition for a Bio::Seq::Trace. |
Bio::SeqAnalysisParserI(3pm) | Sequence analysis output parser interface. |
Bio::SeqEvolution::DNAPoint(3pm) | Evolve a sequence by point mutations. |
Bio::SeqEvolution::EvolutionI(3pm) | The interface for evolving sequences. |
Bio::SeqEvolution::Factory(3pm) | Factory object to instantiate sequence evolving classes. |
Bio::SeqFeature::Amplicon(3pm) | Amplicon feature. |
Bio::SeqFeature::AnnotationAdaptor(3pm) | Integrates SeqFeatureIs annotation. |
Bio::SeqFeature::Collection(3pm) | A container class for SeqFeatures suitable for performing operations such as. |
Bio::SeqFeature::CollectionI(3pm) | An interface for a collection of SeqFeatureI objects. |
Bio::SeqFeature::Computation(3pm) | Computation SeqFeature. |
Bio::SeqFeature::FeaturePair(3pm) | Hold pair feature information e.g. blast hits. |
Bio::SeqFeature::Gene::Exon(3pm) | A feature representing an exon. |
Bio::SeqFeature::Gene::ExonI(3pm) | Interface for a feature representing an exon. |
Bio::SeqFeature::Gene::GeneStructure(3pm) | A feature representing an arbitrarily complex structure of a gene. |
Bio::SeqFeature::Gene::GeneStructureI(3pm) | A feature representing an arbitrarily. |
Bio::SeqFeature::Gene::Intron(3pm) | An intron feature. |
Bio::SeqFeature::Gene::NC_Feature(3pm) | Superclass for non-coding features. |
Bio::SeqFeature::Gene::Poly_A_site(3pm) | Poly A feature. |
Bio::SeqFeature::Gene::Promoter(3pm) | Describes a promoter. |
Bio::SeqFeature::Gene::Transcript(3pm) | A feature representing a transcript. |
Bio::SeqFeature::Gene::TranscriptI(3pm) | Interface for a feature representing a. |
Bio::SeqFeature::Gene::UTR(3pm) | A feature representing an untranslated region. |
Bio::SeqFeature::Generic(3pm) | Generic SeqFeature. |
Bio::SeqFeature::Lite(3pm) | Lightweight Bio::SeqFeatureI class. |
Bio::SeqFeature::PositionProxy(3pm) | Handle features when truncation/revcom sequences span a feature. |
Bio::SeqFeature::Primer(3pm) | Primer Generic SeqFeature. |
Bio::SeqFeature::Similarity(3pm) | A sequence feature based on similarity. |
Bio::SeqFeature::SimilarityPair(3pm) | Sequence feature based on the similarity. |
Bio::SeqFeature::SiRNA::Oligo(3pm) | Perl object for small inhibitory RNAs. |
Bio::SeqFeature::SiRNA::Pair(3pm) | Perl object for small inhibitory RNA (SiRNA) oligo pairs. |
Bio::SeqFeature::SubSeq(3pm) | Feature representing a subsequence. |
Bio::SeqFeature::Tools::FeatureNamer(3pm) | Generates unique persistent names for features. |
Bio::SeqFeature::Tools::IDHandler(3pm) | Maps $seq_feature->primary_tag. |
Bio::SeqFeature::Tools::TypeMapper(3pm) | Maps $seq_feature->primary_tag. |
Bio::SeqFeature::Tools::Unflattener(3pm) | Turns flat list of genbank-sourced features into a nested SeqFeatureI. |
Bio::SeqFeature::TypedSeqFeatureI(3pm) | A strongly typed SeqFeature. |
Bio::SeqFeatureI(3pm) | Abstract interface of a Sequence Feature. |
Bio::SeqI(3pm) | [Developers] Abstract Interface of Sequence (with features). |
Bio::SeqIO(3pm) | Handler for SeqIO Formats. |
Bio::SeqIO::abi(3pm) | Abi trace sequence input/output stream. |
Bio::SeqIO::ace(3pm) | Ace sequence input/output stream. |
Bio::SeqIO::agave(3pm) | AGAVE sequence output stream. |
Bio::SeqIO::alf(3pm) | Alf trace sequence input/output stream. |
Bio::SeqIO::asciitree(3pm) | Asciitree sequence input/output stream. |
Bio::SeqIO::bsml(3pm) | BSML sequence input/output stream. |
Bio::SeqIO::bsml_sax(3pm) | BSML sequence input/output stream using SAX. |
Bio::SeqIO::chadoxml(3pm) | Chadoxml sequence output stream. |
Bio::SeqIO::chaos(3pm) | Chaos sequence input/output stream. |
Bio::SeqIO::chaosxml(3pm) | Chaosxml sequence input/output stream. |
Bio::SeqIO::ctf(3pm) | Ctf trace sequence input/output stream. |
Bio::SeqIO::embl(3pm) | EMBL sequence input/output stream. |
Bio::SeqIO::embldriver(3pm) | EMBL sequence input/output stream. |
Bio::SeqIO::entrezgene(3pm) | Entrez Gene ASN1 parser. |
Bio::SeqIO::excel(3pm) | Sequence input/output stream from a. |
Bio::SeqIO::exp(3pm) | Exp trace sequence input/output stream. |
Bio::SeqIO::fasta(3pm) | Fasta sequence input/output stream. |
Bio::SeqIO::fastq(3pm) | Fastq sequence input/output stream. |
Bio::SeqIO::flybase_chadoxml(3pm) | FlyBase variant of chadoxml with sequence output stream. |
Bio::SeqIO::FTHelper(3pm) | Helper class for EMBL/Genbank feature tables. |
Bio::SeqIO::game(3pm) | … |
Bio::SeqIO::game::featHandler(3pm) | … |
Bio::SeqIO::game::gameHandler(3pm) | … |
Bio::SeqIO::game::gameSubs(3pm) | … |
Bio::SeqIO::game::gameWriter(3pm) | … |
Bio::SeqIO::game::seqHandler(3pm) | … |
Bio::SeqIO::gbdriver(3pm) | GenBank handler-based push parser. |
Bio::SeqIO::gbxml(3pm) | GenBank sequence input/output stream using SAX. |
Bio::SeqIO::gcg(3pm) | GCG sequence input/output stream. |
Bio::SeqIO::genbank(3pm) | GenBank sequence input/output stream. |
Bio::SeqIO::Handler::GenericRichSeqHandler(3pm) | Bio::HandlerI-based data handler for GenBank/EMBL/UniProt (and. |
Bio::SeqIO::interpro(3pm) | InterProScan XML input/output stream. |
Bio::SeqIO::kegg(3pm) | KEGG sequence input/output stream. |
Bio::SeqIO::largefasta(3pm) | Method i/o on very large fasta sequence files. |
Bio::SeqIO::lasergene(3pm) | Lasergene sequence file input/output stream. |
Bio::SeqIO::locuslink(3pm) | LocusLink input/output stream. |
Bio::SeqIO::mbsout(3pm) | Input stream for output by Teshima et al.'s mbs. |
Bio::SeqIO::metafasta(3pm) | Metafasta sequence input/output stream. |
Bio::SeqIO::msout(3pm) | Input stream for output by Hudson's ms. |
Bio::SeqIO::MultiFile(3pm) | Treating a set of files as a single input stream. |
Bio::SeqIO::nexml(3pm) | NeXML sequence input/output stream. |
Bio::SeqIO::phd(3pm) | Phd file input/output stream. |
Bio::SeqIO::pir(3pm) | PIR sequence input/output stream. |
Bio::SeqIO::pln(3pm) | Pln trace sequence input/output stream. |
Bio::SeqIO::qual(3pm) | .qual file input/output stream. |
Bio::SeqIO::raw(3pm) | Raw sequence file input/output stream. |
Bio::SeqIO::scf(3pm) | .scf file input/output stream. |
Bio::SeqIO::seqxml(3pm) | SeqXML sequence input/output stream. |
Bio::SeqIO::strider(3pm) | DNA strider sequence input/output stream. |
Bio::SeqIO::swiss(3pm) | Swissprot sequence input/output stream. |
Bio::SeqIO::swissdriver(3pm) | SwissProt/UniProt handler-based push parser. |
Bio::SeqIO::tab(3pm) | Nearly raw sequence file input/output stream. Reads/writes id"\t"sequence"\n". |
Bio::SeqIO::table(3pm) | Sequence input/output stream from a delimited table. |
Bio::SeqIO::tigr(3pm) | TIGR XML sequence input/output stream. |
Bio::SeqIO::tigrxml(3pm) | Parse TIGR (new) XML. |
Bio::SeqIO::tinyseq(3pm) | Reading/writing sequences in NCBI TinySeq format. |
Bio::SeqIO::tinyseq::tinyseqHandler(3pm) | XML event handlers to support NCBI TinySeq XML parsing. |
Bio::SeqIO::ztr(3pm) | Ztr trace sequence input/output stream. |
Bio::SeqUtils(3pm) | Additional methods for PrimarySeq objects. |
Bio::SimpleAlign(3pm) | Multiple alignments held as a set of sequences. |
Bio::SimpleAnalysisI(3pm) | A simple interface to any (local or remote) analysis tool. |
Bio::Species(3pm) | Generic species object. |
Bio::Structure::Atom(3pm) | Bioperl structure Object, describes an Atom. |
Bio::Structure::Chain(3pm) | Bioperl structure Object, describes a chain. |
Bio::Structure::Entry(3pm) | Bioperl structure Object, describes the whole entry. |
Bio::Structure::IO(3pm) | Handler for Structure Formats. |
Bio::Structure::IO::pdb(3pm) | PDB input/output stream. |
Bio::Structure::Model(3pm) | Bioperl structure Object, describes a Model. |
Bio::Structure::Residue(3pm) | Bioperl structure Object, describes a Residue. |
Bio::Structure::SecStr::DSSP::Res(3pm) | Module for parsing/accessing dssp output. |
Bio::Structure::SecStr::STRIDE::Res(3pm) | Module for parsing/accessing stride output. |
Bio::Structure::StructureI(3pm) | Abstract Interface for a Structure objects. |
Bio::Symbol::Alphabet(3pm) | BSANE/BioCORBA compliant symbol list alphabet. |
Bio::Symbol::AlphabetI(3pm) | A Symbol Alphabet. |
Bio::Symbol::DNAAlphabet(3pm) | A ready made DNA alphabet. |
Bio::Symbol::ProteinAlphabet(3pm) | A ready made Protein alphabet. |
Bio::Symbol::Symbol(3pm) | A biological symbol. |
Bio::Symbol::SymbolI(3pm) | Interface for a Symbol. |
Bio::Taxon(3pm) | A node in a represented taxonomy. |
Bio::Taxonomy(3pm) | Representing Taxonomy. |
Bio::Taxonomy::FactoryI(3pm) | Interface to define how to access NCBI Taxonoy. |
Bio::Taxonomy::Node(3pm) | A node in a represented taxonomy. |
Bio::Taxonomy::Taxon(3pm) | Generic Taxonomic Entity object. |
Bio::Taxonomy::Tree(3pm) | An Organism Level Implementation of TreeI interface. |
Bio::Tools::AlignFactory(3pm) | Base object for alignment factories. |
Bio::Tools::Alignment::Consed(3pm) | A module to work with objects from consed .ace files. |
Bio::Tools::Alignment::Trim(3pm) | A kludge to do specialized trimming of sequence based on quality. |
Bio::Tools::AmpliconSearch(3pm) | Find amplicons in a template using degenerate PCR primers. |
Bio::Tools::Analysis::DNA::ESEfinder(3pm) | A wrapper around ESEfinder server. |
Bio::Tools::Analysis::Protein::Domcut(3pm) | A wrapper around Domcut server. |
Bio::Tools::Analysis::Protein::ELM(3pm) | A wrapper around the ELM server which predicts short functional motifs on. |
Bio::Tools::Analysis::Protein::GOR4(3pm) | A wrapper around GOR4 protein secondary structure prediction server. |
Bio::Tools::Analysis::Protein::HNN(3pm) | A wrapper around the HNN protein secondary structure prediction server. |
Bio::Tools::Analysis::Protein::NetPhos(3pm) | A wrapper around NetPhos server. |
Bio::Tools::Analysis::Protein::Scansite(3pm) | A wrapper around the Scansite server. |
Bio::Tools::Analysis::Protein::Sopma(3pm) | A wrapper around the Sopma protein secondary structure prediction. |
Bio::Tools::Analysis::SimpleAnalysisBase(3pm) | Abstract superclass for SimpleAnalysis implementations. |
Bio::Tools::AnalysisResult(3pm) | Base class for analysis result objects and parsers. |
Bio::Tools::Blat(3pm) | Parser for Blat program. |
Bio::Tools::CodonTable(3pm) | Codon table object. |
Bio::Tools::Coil(3pm) | Parser for Coil output. |
Bio::Tools::dpAlign(3pm) | Perl extension to do pairwise dynamic programming sequence alignment. |
Bio::Tools::ECnumber(3pm) | Representation of EC numbers (Enzyme Classification). |
Bio::Tools::EMBOSS::Palindrome(3pm) | Parse EMBOSS palindrome output. |
Bio::Tools::EPCR(3pm) | Parse ePCR output and make features. |
Bio::Tools::Eponine(3pm) | Results of one Eponine run. |
Bio::Tools::Est2Genome(3pm) | Parse est2genome output, makes simple Bio::SeqFeature::Generic objects. |
Bio::Tools::ESTScan(3pm) | Results of one ESTScan run. |
Bio::Tools::EUtilities(3pm) | NCBI eutil XML parsers. |
Bio::Tools::EUtilities::EUtilDataI(3pm) | EUtil data object interface. |
Bio::Tools::EUtilities::EUtilParameters(3pm) | Manipulation of NCBI eutil-based parameters for remote database. |
Bio::Tools::EUtilities::History(3pm) | Lightweight implementation of HistoryI interface (not bound to filehandles,. |
Bio::Tools::EUtilities::HistoryI(3pm) | Simple extension of EUtilDataI interface class for classes which hold NCBI. |
Bio::Tools::EUtilities::Info(3pm) | Interface class for storing einfo data. |
Bio::Tools::EUtilities::Info::FieldInfo(3pm) | Class for storing einfo field data. |
Bio::Tools::EUtilities::Info::LinkInfo(3pm) | Class for storing einfo link data. |
Bio::Tools::EUtilities::Link(3pm) | General API for accessing data retrieved from elink queries. |
Bio::Tools::EUtilities::Link::LinkSet(3pm) | Class for EUtils LinkSets. |
Bio::Tools::EUtilities::Link::UrlLink(3pm) | Class for EUtils UrlLinks. |
Bio::Tools::EUtilities::Query(3pm) | Parse and collect esearch, epost, espell, egquery information. |
Bio::Tools::EUtilities::Query::GlobalQuery(3pm) | Container class for egquery data. |
Bio::Tools::EUtilities::Summary(3pm) | Class for handling data output (XML) from esummary. |
Bio::Tools::EUtilities::Summary::DocSum(3pm) | Data object for document summary data from esummary. |
Bio::Tools::EUtilities::Summary::Item(3pm) | Simple layered object for DocSum item data. |
Bio::Tools::EUtilities::Summary::ItemContainerI(3pm) | Abtract interface methods for accessing Item information. |
Bio::Tools::Fgenesh(3pm) | Parse results of one Fgenesh run. |
Bio::Tools::FootPrinter(3pm) | Write sequence features in FootPrinter format. |
Bio::Tools::Gel(3pm) | Calculates relative electrophoretic migration distances. |
Bio::Tools::Geneid(3pm) | Results of one geneid run. |
Bio::Tools::Genemark(3pm) | Results of one Genemark run. |
Bio::Tools::Genewise(3pm) | Results of one Genewise run. |
Bio::Tools::Genomewise(3pm) | Results of one Genomewise run. |
Bio::Tools::Genscan(3pm) | Results of one Genscan run. |
Bio::Tools::GFF(3pm) | A Bio::SeqAnalysisParserI compliant GFF format parser. |
Bio::Tools::Glimmer(3pm) | Parser for Glimmer 2.X/3.X prokaryotic and GlimmerM/GlimmerHMM eukaryotic gene. |
Bio::Tools::Grail(3pm) | Results of one Grail run. |
Bio::Tools::GuessSeqFormat(3pm) | Module for determining the sequence format of the contents of a file, a string,. |
Bio::Tools::HMMER::Domain(3pm) | One particular domain hit from HMMER. |
Bio::Tools::HMMER::Results(3pm) | Object representing HMMER output results. |
Bio::Tools::HMMER::Set(3pm) | Set of identical domains from HMMER matches. |
Bio::Tools::Hmmpfam(3pm) | Parser for Hmmpfam program. |
Bio::Tools::ipcress(3pm) | Parse ipcress output and make features. |
Bio::Tools::isPcr(3pm) | Parse isPcr output and make features. |
Bio::Tools::IUPAC(3pm) | Generates unique sequence objects or regular expressions from an ambiguous IUPAC sequence. |
Bio::Tools::Lucy(3pm) | Object for analyzing the output from Lucy,. |
Bio::Tools::Match(3pm) | Parses output from Transfac's match(TM). |
Bio::Tools::MZEF(3pm) | Results of one MZEF run. |
Bio::Tools::OddCodes(3pm) | Object holding alternative alphabet coding for one protein sequence. |
Bio::Tools::Phylo::Gerp(3pm) | Parses output from GERP. |
Bio::Tools::Phylo::Gumby(3pm) | Parses output from gumby. |
Bio::Tools::Phylo::Molphy(3pm) | Parser for Molphy output. |
Bio::Tools::Phylo::Molphy::Result(3pm) | Container for data parsed from a ProtML run. |
Bio::Tools::Phylo::Phylip::ProtDist(3pm) | Parser for ProtDist output. |
Bio::Tools::pICalculator(3pm) | Calculate the isoelectric point of a protein. |
Bio::Tools::Prediction::Exon(3pm) | A predicted exon feature. |
Bio::Tools::Prediction::Gene(3pm) | A predicted gene structure feature. |
Bio::Tools::Primer3(3pm) | Create input for and work with the output from the program primer3. |
Bio::Tools::Primer::Assessor::Base(3pm) | Base class for common assessor things. |
Bio::Tools::Primer::AssessorI(3pm) | Interface for assessing primer pairs. |
Bio::Tools::Primer::Feature(3pm) | Position of a single primer. |
Bio::Tools::Primer::Pair(3pm) | Two primers on left and right side. |
Bio::Tools::Prints(3pm) | Parser for FingerPRINTScanII program. |
Bio::Tools::Profile(3pm) | Parse Profile output. |
Bio::Tools::Promoterwise(3pm) | Parser for Promoterwise tab format output. |
Bio::Tools::PrositeScan(3pm) | Parser for ps_scan result. |
Bio::Tools::Protparam(3pm) | Submit to and parse output from protparam ;. |
Bio::Tools::Pseudowise(3pm) | Results of one Pseudowise run. |
Bio::Tools::pSW(3pm) | Pairwise Smith Waterman object. |
Bio::Tools::QRNA(3pm) | A Parser for qrna output. |
Bio::Tools::RandomDistFunctions(3pm) | A set of routines useful for generating random data in different. |
Bio::Tools::RepeatMasker(3pm) | A parser for RepeatMasker output. |
Bio::Tools::Run::Alignment::Amap(3pm) | Object for the calculation of an iterative multiple sequence alignment from. |
Bio::Tools::Run::Alignment::Blat(3pm) | … |
Bio::Tools::Run::Alignment::Clustalw(3pm) | Object for the calculation of a multiple sequence alignment from a set. |
Bio::Tools::Run::Alignment::DBA(3pm) | Object for the alignment of two sequences using the DNA Block Aligner. |
Bio::Tools::Run::Alignment::Exonerate(3pm) | … |
Bio::Tools::Run::Alignment::Gmap(3pm) | Wrapper for running gmap. |
Bio::Tools::Run::Alignment::Kalign(3pm) | Object for the calculation of an iterative multiple sequence alignment. |
Bio::Tools::Run::Alignment::Lagan(3pm) | Object for the local execution of the LAGAN suite of tools (including. |
Bio::Tools::Run::Alignment::MAFFT(3pm) | Run the MAFFT alignment tools. |
Bio::Tools::Run::Alignment::MSAProbs(3pm) | Object for the calculation of a multiple sequence alignment (MSA) from. |
Bio::Tools::Run::Alignment::Muscle(3pm) | Object for the calculation of an iterative multiple sequence alignment. |
Bio::Tools::Run::Alignment::Pal2Nal(3pm) | Wrapper for Pal2Nal. |
Bio::Tools::Run::Alignment::Probalign(3pm) | Object for the calculation of a multiple sequence alignment from a set. |
Bio::Tools::Run::Alignment::Probcons(3pm) | Object for the calculation of an iterative multiple sequence alignment. |
Bio::Tools::Run::Alignment::Proda(3pm) | Object for the calculation of sets of multiple sequence alignments from a. |
Bio::Tools::Run::Alignment::Sim4(3pm) | Wrapper for Sim4 program that allows for alignment of cdna to genomic. |
Bio::Tools::Run::Alignment::StandAloneFasta(3pm) | Object for the local execution of the Fasta3 programs. |
Bio::Tools::Run::Alignment::TCoffee(3pm) | Object for the calculation of a multiple sequence alignment from a set. |
Bio::Tools::Run::Analysis(3pm) | Module representing any (remote or local) analysis tool. |
Bio::Tools::Run::Analysis::soap(3pm) | A SOAP-based access to the analysis tools. |
Bio::Tools::Run::AnalysisFactory(3pm) | A directory of analysis tools. |
Bio::Tools::Run::AnalysisFactory::soap(3pm) | A SOAP-based access to the list of analysis tools. |
Bio::Tools::Run::AssemblerBase(3pm) | Base class for wrapping external assemblers. |
Bio::Tools::Run::BEDTools(3pm) | Run wrapper for the BEDTools suite of programs *BETA*. |
Bio::Tools::Run::BEDTools::Config(3pm) | Configuration data for bowtie commands. |
Bio::Tools::Run::BlastPlus(3pm) | A wrapper for NCBI's blast+ suite. |
Bio::Tools::Run::Bowtie(3pm) | Run wrapper for the Bowtie short-read assembler *BETA*. |
Bio::Tools::Run::Bowtie::Config(3pm) | Configuration data for bowtie commands. |
Bio::Tools::Run::BWA(3pm) | Run wrapper for the BWA short-read assembler *BETA*. |
Bio::Tools::Run::BWA::Config(3pm) | Configuration data for BWA commands. |
Bio::Tools::Run::Cap3(3pm) | Wrapper for CAP3. |
Bio::Tools::Run::Coil(3pm) | Wrapper for ncoils program. |
Bio::Tools::Run::EMBOSSacd(3pm) | Class for EMBOSS Application qualifiers. |
Bio::Tools::Run::EMBOSSApplication(3pm) | Class for EMBOSS Applications. |
Bio::Tools::Run::Ensembl(3pm) | A simplified front-end for setting up the registry. |
Bio::Tools::Run::Eponine(3pm) | Object for execution of the Eponine which is a mammalian TSS predictor. |
Bio::Tools::Run::ERPIN(3pm) | Wrapper for local execution of the ERPIN suite of programs. |
Bio::Tools::Run::FootPrinter(3pm) | Wrapper for the FootPrinter program. |
Bio::Tools::Run::Genemark(3pm) | Wrapper for local execution of the GeneMark family of programs. |
Bio::Tools::Run::GenericParameters(3pm) | An object for the parameters used to run programs. |
Bio::Tools::Run::Genewise(3pm) | Object for predicting genes in a given sequence given a protein. |
Bio::Tools::Run::Genscan(3pm) | Object for identifying genes in a given sequence given a matrix(for appropriate. |
Bio::Tools::Run::Glimmer(3pm) | Wrapper for local execution of Glimmer, GlimmerM and GlimmerHMM. |
Bio::Tools::Run::Hmmer(3pm) | Wrapper for local execution of hmmalign, hmmbuild, hmmcalibrate, hmmemit, hmmpfam,. |
Bio::Tools::Run::Infernal(3pm) | Wrapper for local execution of cmalign, cmbuild, cmsearch, cmscore. |
Bio::Tools::Run::Maq(3pm) | Run wrapper for the Maq short-read assembler *BETA*. |
Bio::Tools::Run::Maq::Config(3pm) | Configuration data for maq commands. |
Bio::Tools::Run::Match(3pm) | Wrapper for Transfac's match(TM). |
Bio::Tools::Run::MCS(3pm) | Wrapper for MCS. |
Bio::Tools::Run::Mdust(3pm) | Perl extension for Mdust nucleotide filtering. |
Bio::Tools::Run::Meme(3pm) | Wrapper for Meme Program. |
Bio::Tools::Run::Minimo(3pm) | Wrapper for local execution of the Minimo assembler. |
Bio::Tools::Run::Newbler(3pm) | Wrapper for local execution of Newbler. |
Bio::Tools::Run::ParametersI(3pm) | A Base object for the parameters used to run programs. |
Bio::Tools::Run::Phrap(3pm) | A wrapper for running Phrap. |
Bio::Tools::Run::Phylo::FastTree(3pm) | … |
Bio::Tools::Run::Phylo::Gerp(3pm) | Wrapper for GERP. |
Bio::Tools::Run::Phylo::Gumby(3pm) | Wrapper for gumby. |
Bio::Tools::Run::Phylo::Hyphy::Base(3pm) | Hyphy wrapping base methods. |
Bio::Tools::Run::Phylo::Hyphy::BatchFile(3pm) | Wrapper for custom execution of Hyphy batch files. |
Bio::Tools::Run::Phylo::Hyphy::FEL(3pm) | Wrapper around the Hyphy FEL analysis. |
Bio::Tools::Run::Phylo::Hyphy::Modeltest(3pm) | Wrapper around the Hyphy Modeltest analysis. |
Bio::Tools::Run::Phylo::Hyphy::REL(3pm) | Wrapper around the Hyphy REL analysis. |
Bio::Tools::Run::Phylo::Hyphy::SLAC(3pm) | Wrapper around the Hyphy SLAC analysis. |
Bio::Tools::Run::Phylo::LVB(3pm) | Object for using the LVB program to create an array of Bio::Tree objects from a. |
Bio::Tools::Run::Phylo::Molphy::ProtML(3pm) | A wrapper for the Molphy pkg app ProtML. |
Bio::Tools::Run::Phylo::Njtree::Best(3pm) | Wrapper around the Njtree (Njtree/phyml) best program. |
Bio::Tools::Run::Phylo::PAML::Baseml(3pm) | Wrapper aroud the PAML program baseml. |
Bio::Tools::Run::Phylo::PAML::Codeml(3pm) | Wrapper aroud the PAML program codeml. |
Bio::Tools::Run::Phylo::PAML::Evolver(3pm) | Wrapper aroud the PAML program evolver. |
Bio::Tools::Run::Phylo::PAML::Yn00(3pm) | Wrapper aroud the PAML program yn00. |
Bio::Tools::Run::Phylo::Phast::PhastCons(3pm) | Wrapper for footprinting using. |
Bio::Tools::Run::Phylo::Phast::PhyloFit(3pm) | Wrapper for phyloFit. |
Bio::Tools::Run::Phylo::Phylip::Base(3pm) | Base object for Phylip modules. |
Bio::Tools::Run::Phylo::Phylip::Consense(3pm) | Wrapper for the phylip program Consense. |
Bio::Tools::Run::Phylo::Phylip::DrawGram(3pm) | Use Phylip DrawTree program to draw phylograms or phenograms. |
Bio::Tools::Run::Phylo::Phylip::DrawTree(3pm) | Use Phylip DrawTree program to draw trees. |
Bio::Tools::Run::Phylo::Phylip::Neighbor(3pm) | Wrapper for the phylip program neighbor by Joseph Felsenstein for. |
Bio::Tools::Run::Phylo::Phylip::PhylipConf(3pm) | … |
Bio::Tools::Run::Phylo::Phylip::ProtDist(3pm) | Wrapper for the phylip program protdist. |
Bio::Tools::Run::Phylo::Phylip::ProtPars(3pm) | Object for creating a Bio::Tree object from a multiple alignment. |
Bio::Tools::Run::Phylo::Phylip::SeqBoot(3pm) | Wrapper for the phylip program SeqBoot. |
Bio::Tools::Run::Phylo::PhyloBase(3pm) | … |
Bio::Tools::Run::Phylo::Phyml(3pm) | Wrapper for rapid reconstruction of phylogenies using Phyml. |
Bio::Tools::Run::Phylo::QuickTree(3pm) | Wrapper for rapid reconstruction of. |
Bio::Tools::Run::Phylo::Raxml(3pm) | … |
Bio::Tools::Run::Phylo::Semphy(3pm) | Wrapper for Semphy. |
Bio::Tools::Run::Phylo::SLR(3pm) | Wrapper around the SLR program. |
Bio::Tools::Run::Primate(3pm) | … |
Bio::Tools::Run::Primer3(3pm) | Create input for and work with the output from the program primer3. |
Bio::Tools::Run::Prints(3pm) | … |
Bio::Tools::Run::Profile(3pm) | … |
Bio::Tools::Run::Promoterwise(3pm) | Wrapper for aligning two sequences using promoterwise. |
Bio::Tools::Run::Pseudowise(3pm) | Object for prediting pseudogenes in a given sequence given a protein and a cdna. |
Bio::Tools::Run::RemoteBlast(3pm) | Object for remote execution of the NCBI Blast via HTTP. |
Bio::Tools::Run::RepeatMasker(3pm) | Wrapper for RepeatMasker Program. |
Bio::Tools::Run::RNAMotif(3pm) | Wrapper for local execution of rnamotif, rm2ct, rmfmt, rmprune. |
Bio::Tools::Run::Samtools(3pm) | A run wrapper for the samtools suite *BETA*. |
Bio::Tools::Run::Samtools::Config(3pm) | Configurator for Bio::Tools::Run::Samtools. |
Bio::Tools::Run::Seg(3pm) | Object for identifying low complexity. |
Bio::Tools::Run::Signalp(3pm) | … |
Bio::Tools::Run::Simprot(3pm) | Wrapper around the Simprot program. Wrapper for the calculation of a multiple. |
Bio::Tools::Run::StandAloneBlast(3pm) | Object for the local execution of the NCBI BLAST program suite (blastall,. |
Bio::Tools::Run::StandAloneBlastPlus(3pm) | Compute with NCBI's blast+ suite *ALPHA*. |
Bio::Tools::Run::StandAloneBlastPlus::BlastMethods(3pm) | Provides BLAST methods to StandAloneBlastPlus. |
Bio::Tools::Run::StandAloneNCBIBlast(3pm) | Object for the local execution of the NCBI BLAST program suite. |
Bio::Tools::Run::StandAloneWUBlast(3pm) | Object for the local execution of WU-Blast. |
Bio::Tools::Run::TigrAssembler(3pm) | Wrapper for local execution of TIGR Assembler. |
Bio::Tools::Run::Tmhmm(3pm) | Object for identifying transmembrane helixes. |
Bio::Tools::Run::TribeMCL(3pm) | … |
Bio::Tools::Run::tRNAscanSE(3pm) | Wrapper for local execution of tRNAscan-SE. |
Bio::Tools::Run::Vista(3pm) | … |
Bio::Tools::Run::WrapperBase(3pm) | A Base object for wrappers around executables. |
Bio::Tools::Run::WrapperBase::CommandExts(3pm) | Extensions to WrapperBase for handling programs with commands. |
Bio::Tools::Seg(3pm) | Parse "seg" output. |
Bio::Tools::SeqPattern(3pm) | Represent a sequence pattern or motif. |
Bio::Tools::SeqPattern::Backtranslate(3pm) | … |
Bio::Tools::SeqStats(3pm) | Object holding statistics for one particular sequence. |
Bio::Tools::SeqWords(3pm) | Object holding n-mer statistics for a sequence. |
Bio::Tools::Sigcleave(3pm) | Bioperl object for sigcleave analysis. |
Bio::Tools::Signalp(3pm) | Parser for Signalp output. |
Bio::Tools::Signalp::ExtendedSignalp(3pm) | Enhanced parser for Signalp output. |
Bio::Tools::Sim4::Exon(3pm) | A single exon determined by an alignment. |
Bio::Tools::Sim4::Results(3pm) | Results of one Sim4 run. |
Bio::Tools::SiRNA(3pm) | Perl object for designing small inhibitory RNAs. |
Bio::Tools::SiRNA::Ruleset::saigo(3pm) | Perl object implementing the Saigo group's rules for designing small. |
Bio::Tools::SiRNA::Ruleset::tuschl(3pm) | Perl object implementing the tuschl group's rules for designing small. |
Bio::Tools::Spidey::Exon(3pm) | A single exon determined by an alignment. |
Bio::Tools::Spidey::Results(3pm) | Results of a Spidey run. |
Bio::Tools::TandemRepeatsFinder(3pm) | A parser for Tandem Repeats Finder output. |
Bio::Tools::TargetP(3pm) | Results of one TargetP run. |
Bio::Tools::Tmhmm(3pm) | Parse TMHMM output (TransMembrane HMM). |
Bio::Tools::tRNAscanSE(3pm) | A parser for tRNAscan-SE output. |
Bio::Tree::AlleleNode(3pm) | A Node with Alleles attached. |
Bio::Tree::AnnotatableNode(3pm) | A Tree Node with support for annotation. |
Bio::Tree::Compatible(3pm) | Testing compatibility of phylogenetic trees with nested taxa. |
Bio::Tree::DistanceFactory(3pm) | Construct a tree using distance based methods. |
Bio::Tree::Draw::Cladogram(3pm) | Drawing phylogenetic trees in Encapsulated PostScript (EPS) format. |
Bio::Tree::Node(3pm) | A Simple Tree Node. |
Bio::Tree::NodeI(3pm) | Interface describing a Tree Node. |
Bio::Tree::NodeNHX(3pm) | A Simple Tree Node with support for NHX tags. |
Bio::Tree::RandomFactory(3pm) | TreeFactory for generating Random Trees. |
Bio::Tree::Statistics(3pm) | Calculate certain statistics for a Tree. |
Bio::Tree::Tree(3pm) | An implementation of the TreeI interface. |
Bio::Tree::TreeFunctionsI(3pm) | Decorated Interface implementing basic Tree exploration methods. |
Bio::Tree::TreeI(3pm) | A Tree object suitable for lots of things, designed. |
Bio::TreeIO(3pm) | Parser for Tree files. |
Bio::TreeIO::cluster(3pm) | A TreeIO driver module for parsing Algorithm::Cluster::treecluster() output. |
Bio::TreeIO::lintree(3pm) | Parser for lintree output trees. |
Bio::TreeIO::newick(3pm) | … |
Bio::TreeIO::NewickParser(3pm) | … |
Bio::TreeIO::nexml(3pm) | A TreeIO driver module for parsing NeXML tree files. |
Bio::TreeIO::nexus(3pm) | A TreeIO driver module for parsing Nexus tree output from PAUP. |
Bio::TreeIO::nhx(3pm) | TreeIO implementation for parsing. |
Bio::TreeIO::pag(3pm) | Bio::TreeIO driver for Pagel format. |
Bio::TreeIO::phyloxml(3pm) | TreeIO implementation for parsing PhyloXML format. |
Bio::TreeIO::svggraph(3pm) | A simple output format that converts a Tree object to an SVG output. |
Bio::TreeIO::tabtree(3pm) | A simple output format which displays a tree as an ASCII drawing. |
Bio::TreeIO::TreeEventBuilder(3pm) | Build Bio::Tree::Tree's and. |
Bio::UpdateableSeqI(3pm) | Descendant of Bio::SeqI that allows updates. |
Bio::Variation::AAChange(3pm) | Sequence change class for polypeptides. |
Bio::Variation::AAReverseMutate(3pm) | Point mutation and codon. |
Bio::Variation::Allele(3pm) | Sequence object with allele-specific attributes. |
Bio::Variation::DNAMutation(3pm) | DNA level mutation class. |
Bio::Variation::IO(3pm) | Handler for sequence variation IO Formats. |
Bio::Variation::IO::flat(3pm) | Flat file sequence variation input/output stream. |
Bio::Variation::IO::xml(3pm) | XML sequence variation input/output stream. |
Bio::Variation::RNAChange(3pm) | Sequence change class for RNA level. |
Bio::Variation::SeqDiff(3pm) | Container class for mutation/variant descriptions. |
Bio::Variation::SNP(3pm) | Submitted SNP. |
Bio::Variation::VariantI(3pm) | Sequence Change SeqFeature abstract class. |
Bio::WebAgent(3pm) | A base class for Web (any protocol) access. |
bisque(3pm) ↣ Tk::palette(3pm) | Modify the Tk color palette. |
Bit::Vector(3pm) | Efficient bit vector, set of integers and "big int" math library. |
Bit::Vector::Minimal(3pm) | Object-oriented wrapper around vec(). |
Bit::Vector::Overload(3pm) | Overloaded operators add-on for Bit::Vector. |
Bit::Vector::String(3pm) | Generic string import/export for Bit::Vector. |
blhc(1) | Build log hardening check, checks build logs for missing hardening flags. |
Bloom::Filter(3pm) | Sample Perl Bloom filter implementation. |
bones-info(1) | Display information about a Nethack bones file. |
boolean(3pm) | Boolean support for Perl. |
Boost::Geometry::Utils(3pm) | Bindings for the Boost Geometry library. |
bot-basicbot-pluggable(1p) | A standard Bot::BasicBot::Pluggable script. |
bot-training(1p) | Command-line interface Bot::Training. |
Bot::BasicBot(3pm) | Simple irc bot baseclass. |
Bot::BasicBot::Pluggable(3pm) | Extended simple IRC bot for pluggable modules. |
Bot::BasicBot::Pluggable::Module(3pm) | Base module for all BasicBot plugins. |
Bot::BasicBot::Pluggable::Module::Auth(3pm) | Authentication for Bot::BasicBot::Pluggable modules. |
Bot::BasicBot::Pluggable::Module::ChanOp(3pm) | Channel operator. |
Bot::BasicBot::Pluggable::Module::DNS(3pm) | DNS lookups for hostnames or IP addresses. |
Bot::BasicBot::Pluggable::Module::Google(3pm) | Searches Google for terms and spellings. |
Bot::BasicBot::Pluggable::Module::Infobot(3pm) | Infobot clone redone in B::B::P. |
Bot::BasicBot::Pluggable::Module::Join(3pm) | Join and leave channels; remembers state. |
Bot::BasicBot::Pluggable::Module::Karma(3pm) | Tracks karma for various concepts. |
Bot::BasicBot::Pluggable::Module::Loader(3pm) | Loads and unloads bot modules; remembers state. |
Bot::BasicBot::Pluggable::Module::Seen(3pm) | Track when and where people were seen. |
Bot::BasicBot::Pluggable::Module::Title(3pm) | Speaks the title of URLs mentioned. |
Bot::BasicBot::Pluggable::Module::Vars(3pm) | Change internal module variables. |
Bot::BasicBot::Pluggable::Store(3pm) | Base class for the back-end pluggable store. |
Bot::BasicBot::Pluggable::Store::DBI(3pm) | Use DBI to provide a storage backend. |
Bot::BasicBot::Pluggable::Store::Deep(3pm) | Use DBM::Deep to provide a storage backend. |
Bot::BasicBot::Pluggable::Store::Memory(3pm) | Use memory (RAM) to provide a storage backend. |
Bot::BasicBot::Pluggable::Store::Storable(3pm) | Use Storable to provide a storage backend. |
Bot::BasicBot::Pluggable::Terminal(3pm) | A standard Bot::BasicBot::Pluggable script. |
Bot::Training(3pm) | Plain text training material for bots like Hailo and AI::MegaHAL. |
Boulder(3pm) | An API for hierarchical tag/value structures. |
Boulder::Blast(3pm) | Parse and read BLAST files. |
Boulder::Blast::NCBI(3pm) | Parse and read NCBI BLAST files. |
Boulder::Blast::WU(3pm) | Parse and read WU-BLAST files. |
Boulder::Genbank(3pm) | Fetch Genbank data records as parsed Boulder Stones. |
Boulder::LocusLink(3pm) | Fetch LocusLink data records as parsed Boulder Stones. |
Boulder::Medline(3pm) | Fetch Medline data records as parsed Boulder Stones. |
Boulder::Omim(3pm) | Fetch Omim data records as parsed Boulder Stones. |
Boulder::Store(3pm) | Simple persistent storage for Stone tag/value objects. |
Boulder::Stream(3pm) | Read and write tag/value data from an input stream. |
Boulder::String(3pm) | Read and write tag/value data from a string. |
Boulder::Swissprot(3pm) | Fetch SwissProt data records as parsed Boulder Stones. |
Boulder::Unigene(3pm) | Fetch Unigene data records as parsed Boulder Stones. |
Boulder::XML(3pm) | XML format input/output for Boulder streams. |
boxer(1p) | Boxer command line utils. |
Boxer(3pm) | System deployment ninja tricks. |
Boxer::CLI(3pm) | Boxer command line utils. |
Boxer::CLI::Command(3pm) | … |
Boxer::CLI::Command::About(3pm) | … |
Boxer::CLI::Command::Aliases(3pm) | … |
Boxer::CLI::Command::Commands(3pm) | … |
Boxer::CLI::Command::Compose(3pm) | … |
Boxer::File::WithSkeleton(3pm) | … |
Boxer::Part(3pm) | Software component. |
Boxer::Part::Reclass(3pm) | Software component as a reclass node or class. |
Boxer::Role::Interact(3pm) | … |
Boxer::Task(3pm) | … |
Boxer::Task::Classify(3pm) | … |
Boxer::Task::Serialize(3pm) | … |
Boxer::Types(3pm) | … |
Boxer::World(3pm) | Set of software available to install. |
Boxer::World::Flat(3pm) | Software for single use case. |
Boxer::World::Reclass(3pm) | Software as serialized by reclass. |
bp_aacomp(1p) | Amino acid composition of protein sequences. |
bp_biofetch_genbank_proxy(1p) | Caching BioFetch-compatible web proxy for GenBank. |
bp_bioflat_index(1p) | Index sequence files using Bio::DB::Flat. |
bp_biogetseq(1p) | Sequence retrieval using OBDA registry. |
bp_bioperl_application_installer.pl(1p) | Downloads and installs runnables. |
bp_blast2tree(1p) | Builds a phylogenetic tree based on a sequence search (FastA,BLAST,HMMER). |
bp_bulk_load_gff(1p) | Bulk-load a Bio::DB::GFF database from GFF files. |
bp_chaos_plot(1p) | A chaos plot from DNA and RNA sequences. |
bp_classify_hits_kingdom(1p) | Classify BLAST hits by taxonomic kingdom. |
bp_composite_LD(1p) | … |
bp_dbsplit(1p) | Script to split an input set of database(s) into smaller pieces. |
bp_download_query_genbank(1p) | Script to query Genbank and retrieve records. |
bp_einfo(1p) | Query einfo to find all available databases or information about a specific database (field. |
bp_extract_feature_seq(1p) | Extract the corresponding sequence for a specified feature type. |
bp_fast_load_gff(1p) | Fast-load a Bio::DB::GFF database from GFF files. |
bp_fastam9_to_table(1p) | Turn FASTA -m 9 output into NCBI -m 9 tabular output. |
bp_fetch(1p) | Fetches sequences from bioperl indexed databases. |
bp_filter_search(1p) | Filters searchio results, outputting a tab delimited summary. |
bp_find-blast-matches(1p) | Extract DNA sequences based on BLAST hits. |
bp_flanks(1p) | Finding flanking sequences for a variant in a sequence position. |
bp_gccalc(1p) | GC content of nucleotide sequences. |
bp_genbank2gff(1p) | Load a Bio::DB::GFF database from GENBANK files. |
bp_genbank2gff3(1p) | … |
bp_genbank_ref_extractor(1p) | Retrieves all related sequences for a list of searches on Entrez gene. |
bp_generate_histogram(1p) | … |
bp_heterogeneity_test(1p) | A test for distinguishing between selection and population expansion. |
bp_hivq(1p) | An interactive command-line interface to Bio::DB::HIV and Bio::DB::Query::HIVQuery. |
bp_hmmer_to_table(1p) | Turn HMMER output into tabular format. |
bp_index(1p) | Indexes files for use by bp_fetch.pl. |
bp_load_gff(1p) | Load a Bio::DB::GFF database from GFF files. |
bp_local_taxonomydb_query(1p) | Query a local TaxonomyDB for species or taxonid. |
bp_make_mrna_protein(1p) | Convert an input mRNA/cDNA sequence into protein. |
bp_mask_by_search(1p) | Mask sequence(s) based on its alignment results. |
bp_meta_gff(1p) | Get/set Bio::DB::GFF meta-data. |
bp_mrtrans(1p) | Implement a transformer of alignments from protein to mrna coordinates. |
bp_multi_hmmsearch.pl(1p) | Perform a hmmsearch into multiple FASTA files using. |
bp_mutate(1p) | Randomly mutagenize a single protein or DNA sequence. |
bp_netinstall(1p) | Net-based installer of BioPerl. |
bp_nexus2nh(1p) | Convert nexus format trees (from PAUP* and MrBayes) to new hampshire. |
bp_nrdb(1p) | A script to emulate Warren Gish's nrdb, make a unique sequence database from a set of input. |
bp_oligo_count(1p) | Oligo count and frequency. |
bp_panalysis.pl(1p) | An example/tutorial script how to access analysis tools. |
bp_papplmaker.pl(1p) | Analysis tools module generator. |
bp_parse_hmmsearch(1p) | Parse single/multiple HMMSEARCH results file(s) with. |
bp_process_gadfly(1p) | Massage Gadfly/FlyBase GFF files into a version suitable for the Generic Genome Browser. |
bp_process_sgd(1p) | Massage SGD annotation flat files into a version suitable for the Generic Genome Browser. |
bp_process_wormbase(1p) | Massage WormBase GFF files into a version suitable for the Generic Genome Browser. |
bp_query_entrez_taxa(1p) | Query Entrez taxonomy database and print out information. |
bp_remote_blast(1p) | Script for submitting jobs to a remote blast server (ncbi blast queue at this time). |
bp_revtrans-motif(1p) | Reverse translate a Profam-like protein motif. |
bp_run_neighbor.pl(1p) | Run Phylip's 'neighbor' program through Bioperl. |
bp_run_protdist.pl(1p) | Run Phylip's 'protdist' program through Bioperl. |
bp_search2alnblocks(1p) | Turn SearchIO parseable reports(s) into a set of aligned blocks. |
bp_search2gff(1p) | Turn a SearchIO report into GFF. |
bp_search2table(1p) | Turn SearchIO parseable reports into tab delimited format like NCBI's -m 9. |
bp_search2tribe(1p) | Turn SearchIO parseable reports(s) into TRIBE matrix. |
bp_seq_length(1p) | Lists the number of bases and number of sequences in specified sequence database files. |
bp_seqconvert(1p) | Generic BioPerl sequence format converter. |
bp_seqcut(1p) | Cut FASTA sequences with a given range. |
bp_seqfeature_load(1p) | Load GFF into a SeqFeature database. |
bp_seqpart(1p) | Takes one or more sequence files and splits them into a number of load balanced files. |
bp_seqret(1p) | Bioperl implementation of sequence fetch from local db (like EMBOSS seqret). |
bp_seqretsplit(1p) | Split a sequence (or stream) into a single file per sequence. |
bp_split_seq(1p) | Splits a sequence into equal sized chunks with an optional. |
bp_sreformat(1p) | Convert sequence formats. |
bp_taxid4species(1p) | Simple script which returns the NCBI Taxonomic id for a requested species. |
bp_taxonomy2tree(1p) | Building a taxonomic tree based on the full lineages of a set of species names. |
bp_translate_seq(1p) | Translates a sequence. |
bp_tree2pag(1p) | Convert Bio::TreeIO parseable format trees to pagel format. |
bp_unflatten_seq(1p) | Unflatten a genbank or genbank-style feature file into a nested SeqFeature hierarchy. |
Bread::Board(3pm) | A solderless way to wire up your application components. |
Bread::Board::BlockInjection(3pm) | … |
Bread::Board::ConstructorInjection(3pm) | … |
Bread::Board::Container(3pm) | … |
Bread::Board::Container::FromParameterized(3pm) | … |
Bread::Board::Container::Parameterized(3pm) | A parameterized container. |
Bread::Board::Dependency(3pm) | … |
Bread::Board::Dumper(3pm) | … |
Bread::Board::LifeCycle(3pm) | … |
Bread::Board::LifeCycle::Singleton(3pm) | … |
Bread::Board::LifeCycle::Singleton::WithParameters(3pm) | … |
Bread::Board::Literal(3pm) | … |
Bread::Board::Manual(3pm) | A manual for Bread::Board. |
Bread::Board::Manual::Concepts(3pm) | An overview of the concepts in Bread::Board. |
Bread::Board::Manual::Concepts::Advanced(3pm) | An overview of some of the more advanced Bread::Board concepts. |
Bread::Board::Manual::Concepts::Typemap(3pm) | An overview of the typemapping feature. |
Bread::Board::Manual::Example(3pm) | A set of examples of Bread::Board usage. |
Bread::Board::Manual::Example::FormSensible(3pm) | A Form::Sensible and Catalyst example. |
Bread::Board::Manual::Example::LogDispatch(3pm) | An example of composing a dynamic Log::Dispatch object. |
Bread::Board::Service(3pm) | … |
Bread::Board::Service::Alias(3pm) | … |
Bread::Board::Service::Deferred(3pm) | … |
Bread::Board::Service::Deferred::Thunk(3pm) | … |
Bread::Board::Service::Inferred(3pm) | … |
Bread::Board::Service::WithClass(3pm) | … |
Bread::Board::Service::WithDependencies(3pm) | … |
Bread::Board::Service::WithParameters(3pm) | … |
Bread::Board::SetterInjection(3pm) | … |
Bread::Board::Traversable(3pm) | … |
Bread::Board::Types(3pm) | … |
Browser::Open(3pm) | Open a browser in a given URL. |
BSD::arc4random(3pm) | Perl interface to the arc4 random number generator. |
BSD::Resource(3pm) | BSD process resource limit and priority functions. |
BSON(3pm) | BSON serialization and deserialization. |
BSON::Binary(3pm) | Legacy BSON type wrapper for binary data (DEPRECATED). |
BSON::Bool(3pm) | Legacy BSON type wrapper for Booleans (DEPRECATED). |
BSON::Bytes(3pm) | BSON type wrapper for binary byte strings. |
BSON::Code(3pm) | BSON type wrapper for Javascript code. |
BSON::DBRef(3pm) | BSON type wrapper for MongoDB DBRefs. |
BSON::Decimal128(3pm) | BSON type wrapper for Decimal128. |
BSON::Doc(3pm) | BSON type wrapper for ordered documents. |
BSON::Double(3pm) | BSON type wrapper for Double. |
BSON::Int32(3pm) | BSON type wrapper for Int32. |
BSON::Int64(3pm) | BSON type wrapper for Int64. |
BSON::MaxKey(3pm) | BSON type wrapper for MaxKey. |
BSON::MinKey(3pm) | BSON type wrapper for MinKey. |
BSON::ObjectId(3pm) | Legacy BSON type wrapper for Object IDs (DEPRECATED). |
BSON::OID(3pm) | BSON type wrapper for Object IDs. |
BSON::PP(3pm) | Pure Perl BSON implementation. |
BSON::Raw(3pm) | BSON type wrapper for pre-encoded BSON documents. |
BSON::Regex(3pm) | BSON type wrapper for regular expressions. |
BSON::String(3pm) | BSON type wrapper for strings. |
BSON::Time(3pm) | BSON type wrapper for date and time. |
BSON::Timestamp(3pm) | BSON type wrapper for timestamps. |
BSON::Types(3pm) | Helper functions to wrap BSON type classes. |
bucardo(1p) | Utility script for controlling the Bucardo program. |
Bucardo(3pm) | Postgres multi-master replication system. |
buffycli(1p) | Text mode alternative to Buffy. Monitors new and unread messages in a collection of mail folders. |
Bundle::Apache2(3pm) | Install Apache mod_perl2 and related modules. |
Bundle::Apache::ASP(3pm) | Install Apache::ASP and required. |
Bundle::Apache::ASP::Extra(3pm) | Install modules that provide additional functionality to Apache::ASP. |
Bundle::ApacheTest(3pm) | A bundle to install all Apache-Test related modules. |
Bundle::DBD::CSV(3pm) | A bundle to install the DBD::CSV driver. |
Bundle::DBD::Pg(3pm) | A bundle to install all DBD::Pg related modules. |
Bundle::DBI(3pm) | A bundle to install DBI and required modules. |
Bundle::Net::LDAP(3pm) | A bundle for Net::LDAP. |
Bundle::Object::InsideOut(3pm) | A bundle of modules for full Object::InsideOut support. |
Bundle::pRPC-modules(3pm) | A bundle to install pRPC-modules and prerequisites. |
Bundle::SNMP::MIB::Compiler(3pm) | A bundle to install all SNMP::MIB::Compiler related modules. |
Business::BR(3pm) | Root for namespace of Brazilian business-related modules. |
Business::BR::Biz(3pm) | DEPRECATED (was: Modules for Brazilian business-related subjects). |
Business::BR::CNPJ(3pm) | Perl module to test for correct CNPJ numbers. |
Business::BR::CPF(3pm) | Perl module to test for correct CPF numbers. |
Business::BR::Ids(3pm) | Modules for dealing with Brazilian identification codes (CPF, CNPJ, ...). |
Business::BR::Ids::Common(3pm) | Common code used in Business-BR-Ids modules. |
Business::BR::IE(3pm) | Perl module to test for correct IE numbers. |
Business::BR::PIS(3pm) | Perl module to test for correct PIS numbers. |
Business::CreditCard(3pm) | Validate/generate credit card checksums/names. |
Business::EDI(3pm) | Top level class for generating U.N. EDI interchange objects and subobjects. |
Business::EDI::CodeList(3pm) | Abstract object class for UN/EDIFACT objects that do not have further descendant. |
Business::EDI::Composite(3pm) | EDI Composite class. |
Business::EDI::Spec(3pm) | Object class for CSV-based U.N. EDI specifications. |
Business::Edifact::Interchange(3pm) | Parse Edifact Messages For Book Ordering. |
Business::Edifact::Message(3pm) | Class that models Edifact Messages. |
Business::Edifact::Message::LineItem(3pm) | Model an individual Item Line in a message. |
Business::FraudDetect(3pm) | A cohort to Business::OnlinePayment. |
Business::FraudDetect::preCharge(3pm) | Backend for Business::FraudDetect (part of Business::OnlinePayment). |
Business::Hours(3pm) | Calculate business hours in a time period. |
Business::ISBN(3pm) | Work with International Standard Book Numbers. |
Business::ISBN10(3pm) | Work with 10 digit International Standard Book Numbers. |
Business::ISBN13(3pm) | Work with 13 digit International Standard Book Numbers. |
Business::ISBN::Data(3pm) | Data pack for Business::ISBN. |
Business::ISMN(3pm) | Work with International Standard Music Numbers. |
Business::ISMN::Data(3pm) | Data pack for Business::ISMN. |
Business::ISSN(3pm) | Perl extension for International Standard Serial Numbers. |
Business::OnlinePayment(3pm) | Perl extension for online payment processing. |
Business::OnlinePayment::AuthorizeNet(3pm) | AuthorizeNet backend for Business::OnlinePayment. |
Business::OnlinePayment::AuthorizeNet::AIM(3pm) | AuthorizeNet AIM backend for Business::OnlinePayment. |
Business::OnlinePayment::AuthorizeNet::AIM::ErrorCodes(3pm) | Easy lookup of Authorize.Net's AIM result reason. |
Business::OnlinePayment::AuthorizeNet::ARB(3pm) | AuthorizeNet ARB backend for Business::OnlinePayment. |
Business::OnlinePayment::HTTPS(3pm) | Base class for HTTPS payment APIs. |
Business::OnlinePayment::IPPay(3pm) | IPPay backend for Business::OnlinePayment. |
Business::OnlinePayment::OpenECHO(3pm) | ECHO backend module for Business::OnlinePayment. |
Business::OnlinePayment::PayConnect(3pm) | PaymentOne (formerly eBillit) PayConnect backend for. |
Business::OnlinePayment::PayflowPro(3pm) | Payflow Pro backend for Business::OnlinePayment. |
Business::OnlinePayment::PaymenTech(3pm) | Chase Paymentech backend for Business::OnlinePayment. |
Business::OnlinePayment::TCLink(3pm) | TrustCommerce backend for Business::OnlinePayment. |
Business::OnlinePayment::TransactionCentral(3pm) | Transaction Central backend module for Business::OnlinePayment. |
Business::OnlinePayment::viaKLIX(3pm) | ViaKLIX backend for Business::OnlinePayment. |
Business::PayPal::API(3pm) | PayPal SOAP API client with sandbox support. |
Business::PayPal::API::AuthorizationRequest(3pm) | PayPal AuthorizationRequest API. |
Business::PayPal::API::CaptureRequest(3pm) | PayPal CaptureRequest API. |
Business::PayPal::API::DirectPayments(3pm) | PayPal DirectPayments API. |
Business::PayPal::API::ExpressCheckout(3pm) | PayPal Express Checkout API. |
Business::PayPal::API::GetBalance(3pm) | PayPal GetBalance API. |
Business::PayPal::API::GetTransactionDetails(3pm) | PayPal GetTransactionDetails API. |
Business::PayPal::API::MassPay(3pm) | PayPal MassPay API. |
Business::PayPal::API::ReauthorizationRequest(3pm) | PayPal ReauthorizationRequest API. |
Business::PayPal::API::RecurringPayments(3pm) | PayPal RecurringPayments API. |
Business::PayPal::API::RefundTransaction(3pm) | PayPal RefundTransaction API. |
Business::PayPal::API::TransactionSearch(3pm) | PayPal TransactionSearch API. |
Business::PayPal::API::VoidRequest(3pm) | PayPal VoidRequest API. |
Business::Tax::VAT::Validation(3pm) | Validate EU VAT numbers against VIES. |
Business::US::USPS::WebTools(3pm) | Use the US Postal Service Web Tools. |
Bytes::Random::Secure(3pm) | Perl extension to generate cryptographically-secure random bytes. |
Cache(3pm) | The Cache interface. |
Cache.pm(3) | Octopussy Cache module. |
Cache::BaseCache(3pm) | … |
Cache::BaseCacheTester(3pm) | … |
Cache::BDB(3pm) | An object caching wrapper around BerkeleyDB. |
Cache::Cache(3pm) | … |
Cache::CacheMetaData(3pm) | … |
Cache::CacheSizer(3pm) | … |
Cache::CacheTester(3pm) | … |
Cache::CacheUtils(3pm) | … |
Cache::Entry(3pm) | Interface for a cache entry. |
Cache::FastMmap(3pm) | Uses an mmap'ed file to act as a shared memory interprocess cache. |
Cache::File(3pm) | Filesystem based implementation of the Cache interface. |
Cache::File::Entry(3pm) | An entry in the file based implementation of Cache. |
Cache::File::Handle(3pm) | Wrapper for IO::File to use in Cache::File implementation. |
Cache::File::Heap(3pm) | A file based heap for use by Cache::File. |
Cache::FileBackend(3pm) | … |
Cache::FileCache(3pm) | … |
Cache::Historical(3pm) | Cache historical values. |
Cache::IOString(3pm) | Wrapper for IO::String to use in Cache implementations. |
Cache::LRU(3pm) | A simple, fast implementation of LRU cache in pure perl. |
Cache::Memcached(3pm) | Client library for memcached (memory cache daemon). |
Cache::Memcached::Fast(3pm) | Perl client for memcached, in C language. |
Cache::Memcached::GetParserXS(3pm) | GetParser implementation in XS for use with Cache::Memcached. |
Cache::Memcached::libmemcached(3pm) | Cache interface to Memcached::libmemcached. |
Cache::Memcached::Managed(3pm) | Provide API for managing cached information. |
Cache::Memcached::Managed::Inactive(3pm) | Inactive Cache::Memcache::Managed object. |
Cache::Memcached::Managed::Multi(3pm) | Multiple Cache::Memcache::Managed objects. |
Cache::Memory(3pm) | Memory based implementation of the Cache interface. |
Cache::Memory::Entry(3pm) | An entry in the memory based implementation of Cache. |
Cache::Memory::HeapElem(3pm) | Wrapper for Heap::Elem that stores keys. |
Cache::MemoryBackend(3pm) | … |
Cache::MemoryCache(3pm) | … |
Cache::Mmap(3pm) | Shared data cache using memory mapped files. |
Cache::Null(3pm) | Null implementation of the Cache interface. |
Cache::Null::Entry(3pm) | An entry in the Null implementation of Cache. |
Cache::NullCache(3pm) | … |
Cache::Object(3pm) | … |
Cache::Ref(3pm) | Memory only cache of live references. |
Cache::Ref::CAR(3pm) | CLOCK with Adaptive Replacement. |
Cache::Ref::CAR::Base(3pm) | Base clase for CAR and CART. |
Cache::Ref::CART(3pm) | CAR with temporal filtering. |
Cache::Ref::CLOCK(3pm) | CLOCK cache replacement algorithm. |
Cache::Ref::CLOCK::Base(3pm) | … |
Cache::Ref::FIFO(3pm) | … |
Cache::Ref::GCLOCK(3pm) | GCLOCK cache replacement algorithm. |
Cache::Ref::LIFO(3pm) | Saves entries until full, discarding subsequent sets. |
Cache::Ref::LRU(3pm) | Least recently used expiry policy. |
Cache::Ref::Null(3pm) | Caches nothing. |
Cache::Ref::Random(3pm) | … |
Cache::Ref::Role::API(3pm) | … |
Cache::Ref::Role::Index(3pm) | … |
Cache::Ref::Role::WithDoublyLinkedList(3pm) | … |
Cache::Ref::Util::LRU::API(3pm) | … |
Cache::Ref::Util::LRU::Array(3pm) | … |
Cache::Ref::Util::LRU::List(3pm) | … |
Cache::RemovalStrategy(3pm) | Abstract Removal Strategy interface for a Cache. |
Cache::RemovalStrategy::FIFO(3pm) | FIFO Removal Strategy for a Cache. |
Cache::RemovalStrategy::LRU(3pm) | LRU Removal Strategy for a Cache. |
Cache::SharedMemoryBackend(3pm) | … |
Cache::SharedMemoryCache(3pm) | … |
Cache::Simple::TimedExpiry(3pm) | Simple, time-expiring cache. |
Cache::SizeAwareCache(3pm) | … |
Cache::SizeAwareCacheTester(3pm) | … |
Cache::SizeAwareFileCache(3pm) | … |
Cache::SizeAwareMemoryCache(3pm) | … |
Cache::SizeAwareSharedMemoryCache(3pm) | … |
Cache::Tester(3pm) | Test utility for Cache implementations. |
caff(1) | Fire and Forget. |
Cairo(3pm) | Perl interface to the cairo 2d vector graphics library. |
Cairo::GObject(3pm) | Integrate Cairo into the Glib type system. |
Cal::DAV(3pm) | A CalDAV client. |
Calendar::Simple(3pm) | Perl extension to create simple calendars. |
CAM::PDF(3pm) | PDF manipulation library. |
CAM::PDF::Content(3pm) | PDF page layout parser. |
CAM::PDF::Decrypt(3pm) | PDF security helper. |
CAM::PDF::GS(3pm) | PDF graphic state. |
CAM::PDF::GS::NoText(3pm) | PDF graphic state. |
CAM::PDF::Node(3pm) | PDF element. |
CAM::PDF::PageText(3pm) | Extract text from PDF page tree. |
CAM::PDF::Renderer::Dump(3pm) | Print the graphic state of each node. |
CAM::PDF::Renderer::Images(3pm) | Find all of the images in a page. |
CAM::PDF::Renderer::Text(3pm) | Render an ASCII image of a PDF page. |
CAM::PDF::Renderer::TextFB(3pm) | Framebuffer for CAM::PDF::Renderer::Text. |
Canary::Stability(3pm) | Canary to check perl compatibility for schmorp's modules. |
Captcha::reCAPTCHA(3pm) | A Perl implementation of the reCAPTCHA API. |
Capture::Tiny(3pm) | Capture STDOUT and STDERR from Perl, XS or external programs. |
Carp::Always(3pm) | Warns and dies noisily with stack backtraces. |
Carp::Assert(3pm) | Executable comments. |
Carp::Assert::More(3pm) | Convenience wrappers around Carp::Assert. |
Carp::Clan(3pm) | Report errors from perspective of caller of a "clan" of modules. |
Carp::Clan::Share(3pm) | Share your Carp::Clan settings with your whole Clan. |
Carp::Datum(3pm) | Debugging And Tracing Ultimate Module. |
Carp::Datum::Assert(3pm) | Assertion expression extractor. |
Carp::Datum::Cfg(3pm) | Dynamic Debug Configuration Setting for Datum. |
Carp::Datum::Flags(3pm) | Flag Constants. |
Carp::Datum::MakeMaker(3pm) | Offer to strip Carp::Datum calls statically. |
Carp::Datum::Strip(3pm) | Strips most Carp::Datum calls lexically. |
Carp::Fix::1_25(3pm) | Smooth over incompatible changes in Carp 1.25. |
Carton(3pm) | Perl module dependency manager (aka Bundler for Perl). |
Carton::Doc::Bundle(3pm) | Bundle cached tarballs in vendor/cache. |
Carton::Doc::Check(3pm) | Check if your cpanfile and local environment are in sync. |
Carton::Doc::Exec(3pm) | Execute your script in a carton local environment. |
Carton::Doc::FAQ(3pm) | Frequently Asked Questions. |
Carton::Doc::Fatpack(3pm) | Fatpack carton executable into vendor/bin. |
Carton::Doc::Install(3pm) | Install the dependencies. |
Carton::Doc::List(3pm) | List dependencies tracked in the cpanfile.snapshot file. |
Carton::Doc::Show(3pm) | Show the module information. |
Carton::Doc::Tree(3pm) | Show the tree of dependency graph. |
Carton::Doc::Update(3pm) | Update the dependencies. |
Carton::Doc::Upgrading(3pm) | Upgrading document. |
Carton::Doc::Version(3pm) | Display version. |
Catalyst(3pm) | The Elegant MVC Web Application Framework. |
catalyst.pl(1p) | Bootstrap a Catalyst application. |
Catalyst::Action(3pm) | Catalyst Action. |
Catalyst::Action::Deserialize(3pm) | Deserialize Data in a Request. |
Catalyst::Action::DeserializeMultiPart(3pm) | Deserialize Data in a Multipart Request. |
Catalyst::Action::RenderView(3pm) | Sensible default end action. |
Catalyst::Action::REST(3pm) | Automated REST Method Dispatching. |
Catalyst::Action::REST::ForBrowsers(3pm) | Automated REST Method Dispatching that Accommodates Browsers. |
Catalyst::Action::Role::ACL(3pm) | Deprecated user role-based authorization action class. |
Catalyst::Action::Serialize(3pm) | Serialize Data in a Response. |
Catalyst::Action::Serialize::Data::Serializer(3pm) | Serialize with Data::Serializer. |
Catalyst::Action::SerializeBase(3pm) | Base class for Catalyst::Action::Serialize and. |
Catalyst::ActionChain(3pm) | Chain of Catalyst Actions. |
Catalyst::ActionContainer(3pm) | Catalyst Action Container. |
Catalyst::ActionRole::ACL(3pm) | User role-based authorization action class. |
Catalyst::ActionRole::CheckTrailingSlash(3pm) | Test URI path for trailing slash and redirect if needed. |
Catalyst::ActionRole::ConsumesContent(3pm) | Match on HTTP Request Content-Type. |
Catalyst::ActionRole::HTTPMethods(3pm) | Match on HTTP Methods. |
Catalyst::ActionRole::NeedsLogin(3pm) | Checks if a user is logged in and if not redirects him to login page. |
Catalyst::ActionRole::NoSSL(3pm) | Force an action to be plain. |
Catalyst::ActionRole::QueryMatching(3pm) | Match on GET parameters using type constraints. |
Catalyst::ActionRole::RequireSSL(3pm) | Force an action to be secure only. |
Catalyst::ActionRole::RequireSSL::Role(3pm) | Roles. |
Catalyst::ActionRole::Scheme(3pm) | Match on HTTP Request Scheme. |
Catalyst::Authentication::Credential::Authen::Simple(3pm) | Verify credentials with the Authen::Simple framework. |
Catalyst::Authentication::Credential::HTTP(3pm) | HTTP Basic and Digest authentication for Catalyst. |
Catalyst::Authentication::Credential::NoPassword(3pm) | Authenticate a user without a password. |
Catalyst::Authentication::Credential::Password(3pm) | Authenticate a user with a password. |
Catalyst::Authentication::Credential::Remote(3pm) | Let the webserver (e.g. Apache) authenticate Catalyst. |
Catalyst::Authentication::Realm(3pm) | Base class for realm objects. |
Catalyst::Authentication::Realm::Compatibility(3pm) | Compatibility realm object. |
Catalyst::Authentication::Realm::Progressive(3pm) | Authenticate against multiple realms. |
Catalyst::Authentication::Realm::SimpleDB(3pm) | A simplified Catalyst authentication configurator. |
Catalyst::Authentication::Store(3pm) | All about authentication stores. |
Catalyst::Authentication::Store::DBIx::Class(3pm) | A storage class for Catalyst Authentication using DBIx::Class. |
Catalyst::Authentication::Store::DBIx::Class::User(3pm) | The backing user class for the. |
Catalyst::Authentication::Store::Htpasswd(3pm) | Authen::Htpasswd based user storage/authentication. |
Catalyst::Authentication::Store::Htpasswd::User(3pm) | A user object representing an entry in an htpasswd file. |
Catalyst::Authentication::Store::IMAP(3pm) | Authentication store accessing an IMAP server. |
Catalyst::Authentication::Store::IMAP::User(3pm) | An authentication user for IMAP. |
Catalyst::Authentication::Store::Minimal(3pm) | Minimal authentication store. |
Catalyst::Authentication::Store::Null(3pm) | Null authentication store. |
Catalyst::Authentication::User(3pm) | Base class for user objects. |
Catalyst::Authentication::User::Hash(3pm) | An easy authentication user object based on hashes. |
Catalyst::Base(3pm) | Deprecated base class. |
Catalyst::ClassData(3pm) | Class data accessors. |
Catalyst::Component(3pm) | Catalyst Component Base Class. |
Catalyst::Component::ApplicationAttribute(3pm) | Moose Role for components which capture the application context. |
Catalyst::Component::ContextClosure(3pm) | Moose Role for components which need to close over the $ctx, without. |
Catalyst::Component::InstancePerContext(3pm) | Return a new instance a component on each request. |
Catalyst::Contributing(3pm) | … |
Catalyst::Controller(3pm) | Catalyst Controller base class. |
Catalyst::Controller::ActionRole(3pm) | (DEPRECATED) Apply roles to action instances. |
Catalyst::Controller::FormBuilder(3pm) | Catalyst FormBuilder Base Controller. |
Catalyst::Controller::HTML::FormFu(3pm) | Catalyst integration for HTML::FormFu. |
Catalyst::Controller::REST(3pm) | A RESTful controller. |
Catalyst::Controller::SRU(3pm) | Dispatch SRU methods with Catalyst. |
Catalyst::Delta(3pm) | Overview of changes between versions of Catalyst. |
Catalyst::Devel(3pm) | Catalyst Development Tools. |
Catalyst::Dispatcher(3pm) | The Catalyst Dispatcher. |
Catalyst::DispatchType(3pm) | DispatchType Base Class. |
Catalyst::DispatchType::Chained(3pm) | Path Part DispatchType. |
Catalyst::DispatchType::Default(3pm) | Default DispatchType. |
Catalyst::DispatchType::Index(3pm) | Index DispatchType. |
Catalyst::DispatchType::LocalRegex(3pm) | LocalRegex DispatchType. |
Catalyst::DispatchType::LocalRegexp(3pm) | LocalRegexp DispatchType. |
Catalyst::DispatchType::Path(3pm) | Path DispatchType. |
Catalyst::DispatchType::Regex(3pm) | Regex DispatchType. |
Catalyst::DispatchType::Regexp(3pm) | Regex DispatchType. |
Catalyst::Engine(3pm) | The Catalyst Engine. |
Catalyst::Engine::Apache(3pm) | Catalyst Apache Engines. |
Catalyst::Engine::Apache2(3pm) | Base class for Apache 1.99x and 2.x Engines. |
Catalyst::Engine::Apache2::MP19(3pm) | Catalyst Apache2 mod_perl 1.99x Engine. |
Catalyst::Engine::Apache2::MP20(3pm) | Catalyst Apache2 mod_perl 2.x Engine. |
Catalyst::Engine::Apache::MP13(3pm) | Catalyst Apache mod_perl 1.3x Engine. |
Catalyst::Engine::HTTP(3pm) | Removed module. |
Catalyst::EngineLoader(3pm) | The Catalyst Engine Loader. |
Catalyst::Exception(3pm) | Catalyst Exception Class. |
Catalyst::Exception::Basic(3pm) | Basic Catalyst Exception Role. |
Catalyst::Exception::Detach(3pm) | Exception for redispatching using $ctx->detach(). |
Catalyst::Exception::Go(3pm) | Exception for redispatching using $ctx->go(). |
Catalyst::Exception::Interface(3pm) | Role defining the interface for Catalyst exceptions. |
Catalyst::Helper(3pm) | Bootstrap a Catalyst application. |
Catalyst::Helper::HTML::FormFu(3pm) | Helper to deploy HTML::FormFu template files. |
Catalyst::Helper::Model::Adaptor(3pm) | Helper for the incredibly lazy. |
Catalyst::Helper::Model::CDBI(3pm) | Helper for CDBI Models. |
Catalyst::Helper::Model::DBI(3pm) | Helper for DBI Models. |
Catalyst::Helper::Model::DBIC::Schema(3pm) | Helper for DBIC Schema Models. |
Catalyst::Helper::Model::Factory(3pm) | Helper for the incredibly lazy. |
Catalyst::Helper::Model::Factory::PerRequest(3pm) | Helper for the incredibly lazy. |
Catalyst::Helper::View::CSV(3pm) | Helper for CSV views. |
Catalyst::Helper::View::Email(3pm) | Helper for Email Views. |
Catalyst::Helper::View::Email::Template(3pm) | Helper for Templated Email Views. |
Catalyst::Helper::View::Excel::Template::Plus(3pm) | Helper Class for Catalyst::View::Excel::Template::Plus. |
Catalyst::Helper::Vi |