SIMPLE SOLUTIONS

Manual pages

Origin: perl v5.26.1.

[ Alias ↣ ] Name (section) Brief
a2query(1) Retrieve runtime configuration from a local Apache 2 HTTP server.
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.
ack(1p) Grep-like text finder.
Acme::Damn(3pm) 'Unbless' Perl objects.
add_bug_to_estraier(1p)
AE(3pm) Simpler/faster/newer/cooler AnyEvent API.
afs-newcell(8) Set up initial database server for AFS cell.
afs-rootvol(8) Generate and populate root volumes for new AFS cells.
AFS::PAG(3pm) Perl bindings for AFS PAG manipulation.
AI::FANN(3pm) Perl wrapper for the Fast Artificial Neural Network library.
Algorithm::Combinatorics(3pm) Efficient generation of combinatorial sequences.
Algorithm::Diff::XS(3pm) Algorithm::Diff with XS core loop.
Algorithm::LBFGS(3pm) Perl extension for L-BFGS.
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.
Alien::wxWidgets(3pm) Building, finding and using wxWidgets binaries.
Alien::wxWidgets::Utility(3pm) INTERNAL: do not use.
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.
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.
ampliconnoise(1) Remove noise from high throughput nucleotide sequence data.
AnyDBM_File(3perl) Provide framework for multiple DBMs.
AnyEvent(3pm) The DBI of event loop programming.
AnyEvent::Debug(3pm) Debugging utilities for AnyEvent.
AnyEvent::DNS(3pm) Fully asynchronous DNS resolution.
AnyEvent::FAQ(3pm) Frequently asked questions.
AnyEvent::Handle(3pm) Non-blocking I/O on streaming handles via AnyEvent.
AnyEvent::Handle::UDP(3pm) Client/server UDP handles for AnyEvent.
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::Log(3pm) Simple logging "framework".
AnyEvent::Loop(3pm) AnyEvent's Pure-Perl event loop.
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::TLS(3pm) SSLv2/SSLv3/TLSv1 contexts for use in AnyEvent::Handle.
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.
Apache2::Access(3pm) A Perl API for Apache request object: Access, Authentication and Authorization.
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::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::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.
Apache::Admin::Config(3pm) A module to read/write Apache like configuration files.
Apache::AuthenHook(3pm) Perl API for Apache 2.1 authentication.
Apache::DB(3pm) Run the interactive Perl debugger under mod_perl.
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::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::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::Serialize::Hstore(3pm) Serialize/unserialize datas for PostgreSQL "hstore" storage.
Apache::Session::Serialize::JSON(3pm) Use JSON to zip up data.
Apache::Session::SQLite3(3pm) Use DBD::SQLite 1.x for Apache::Session storage.
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.
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::Cleo(3pm) Play back shell commands for live demonstrations.
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::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::Cpan(3perl) Easily interact with CPAN from the command line.
App::cpanminus(3pm) Get, unpack, build and install modules from CPAN.
App::cpanminus::fatscript(3pm) Get, unpack build and install modules from CPAN.
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::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::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::Command::Void(3pm) Generate VoID descriptions on the command line.
App::Prove(3perl) Implements the "prove" command.
App::Prove(3pm) Implements the "prove" command.
App::Prove::State(3perl) State storage for the "prove" command.
App::Prove::State(3pm) State storage for the "prove" command.
App::Prove::State::Result(3perl) Individual test suite results.
App::Prove::State::Result(3pm) Individual test suite results.
App::Prove::State::Result::Test(3perl) Individual test results.
App::Prove::State::Result::Test(3pm) Individual test results.
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.
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)
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.
Archive::Tar(3perl) Module for manipulations of tar archives.
Archive::Tar::File(3perl) A subclass for in-memory extracted file from Archive::Tar.
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.
Array::RefElem(3pm) Set up array elements as aliases.
arybase(3perl) Set indexing base via $[.
Astro::FITS::CFITSIO(3pm) Perl extension for using the cfitsio library.
Async::Interrupt(3pm) Allow C/XS libraries to interrupt perl asynchronously.
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::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::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::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.
Attribute::Handlers(3perl) Simpler definition of attribute handlers.
attributes(3perl) Get/set subroutine or variable attributes.
Audio::CD(3pm) Perl interface to libcdaudio (cd + cddb).
Audio::Ecasound(3pm) Perl binding to the ecasound sampler, recorder, fx-processor.
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::Scan(3pm) Fast C metadata and tag reader for all common audio file formats.
Auth::GoogleAuth(3pm) Google Authenticator TBOT Abstraction.
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::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::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::SASL::Cyrus(3pm) XS code to glue Perl SASL to Cyrus SASL.
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::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.
autodie(3perl) Replace functions with ones that succeed or die with lexical scope.
autodie::exception(3perl) Exceptions from autodying functions.
autodie::exception::system(3perl) Exceptions from autodying system().
autodie::hints(3perl) Provide hints about user subroutines to autodie.
autodie::Scope::Guard(3perl) Wrapper class for calling subs at end of scope.
autodie::Scope::GuardStack(3perl) Hook stack for managing scopes via %^H.
autodie::skip(3perl) Skip a package when throwing autodie exceptions.
autodie::Util(3perl) Internal Utility subroutines for autodie and Fatal.
AutoLoader(3perl) Load subroutines only on demand.
AutoSearch(1p)
AutoSplit(3perl) Split a package for autoloading.
autouse(3perl) Postpone load of modules until a function is used.
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(3perl) The Perl Compiler Backend.
B::Clobbers(3pm) Clobbering analyzer.
B::Compiling(3pm) Expose PL_compiling to perl.
B::Concise(3perl) Walk Perl syntax tree, printing concise info about ops.
B::ConstOptree(3pm) Optree constant folding for $^O, $^V, and $].
B::Debug(3perl) Walk Perl syntax tree, printing debug info about ops.
B::Deparse(3perl) Perl compiler backend to produce perl code.
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::Op_private(3perl) OP op_private flag definitions.
B::PerlReq(3pm) Perl compiler backend to extract Perl dependencies.
B::Showlex(3perl) Show lexical variables used in functions or files.
B::Terse(3perl) Walk Perl syntax tree, printing terse info about ops.
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.
B::Xref(3perl) Generates cross reference reports for Perl programs.
BackupPC::XS(3pm) Perl extension for BackupPC libraries.
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.
bareword::filehandles(3pm) Disables bareword filehandles.
base(3perl) Establish an ISA relationship with base classes at compile time.
basic_db_auth(8) Database auth helper for Squid.
basic_pop3_auth(8) POP3 authenticator for Squid.
bed2gff3(1p) Convert UCSC Genome Browser-format gene files into GFF files suitable for loading into.
Benchmark(3perl) Benchmark running times of Perl code.
Benchmark::ProgressBar(3pm) Display Progress Bar While You Wait For Your Benchmark.
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.
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.
bigint(3perl) Transparent BigInteger support for Perl.
bignum(3perl) Transparent BigNumber support for Perl.
bigrat(3perl) Transparent BigNumber/BigRational support for Perl.
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::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::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::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::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::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::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::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::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::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::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::GenericParameters(3pm) An object for the parameters used to run programs.
Bio::Tools::Run::ParametersI(3pm) A Base object for the parameters used to run programs.
Bio::Tools::Run::RemoteBlast(3pm) Object for remote execution of the NCBI Blast via HTTP.
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.
Bit::Vector(3pm) Efficient bit vector, set of integers and "big int" math library.
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.
blib(3perl) Use MakeMaker's uninstalled version of a package.
Boost::Geometry::Utils(3pm) Bindings for the Boost Geometry library.
bot-basicbot-pluggable(1p) A standard Bot::BasicBot::Pluggable script.
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.
botch(1) Bootstrap/build order tool chain.
botch-add-arch(1) Add architecture to source packages.
botch-annotate-strong(1) Add strong dependency information to a dependency graph.
botch-apply-ma-diff(1) Applies a multiarch diff as created by botch-ma-diff.
botch-bin2src(1) Convert binary packages to their source packages.
botch-build-fixpoint(1) Find build order until dependency cycles occur.
botch-build-order-from-zero(1) Find a build order for a non-existing architecture.
botch-buildcheck-more-problems(1) A tool like dose-builddebcheck but return more than the first reason.
botch-buildgraph2packages(1) Convert buildgraph to packages.
botch-buildgraph2srcgraph(1) Converts a buildgraph into a srcgraph.
botch-calcportsmetric(1) Calculate source package importance.
botch-calculate-fas(1) Calculate a feedback arc set.
botch-check-ma-same-versions(1) Check if Multi-Arch:same versions are in sync.
botch-checkfas(1) Check which edges in the fas are not droppable.
botch-clean-repository(1) Clean errors in a repository by removing transitively uninstallable or compilable.
botch-collapse-srcgraph(1) Make a srcgraph acyclic by collapsing its strongly connected components.
botch-convert-arch(1) Convert the architecture of a Packages file.
botch-create-graph(1) Create graph based on installation sets, strong dependency sets or dependency closures.
botch-cross(1) Execute botch tools in the cross phase.
botch-distcheck-more-problems(1) A tool like dose-distcheck but return more than the first reason.
botch-dose2html(1) Turn the yaml output by dose-builddebcheck into html.
botch-download-pkgsrc(1) Download Packages and Sources.
botch-droppable-diff(1) Difference between two *.droppable files.
botch-droppable-union(1) Union of two *.droppable files.
botch-extract-scc(1) Extract all strongly connected components.
botch-fasofstats(1) Extract feedback arc set from output of botch-print-stats.
botch-filter-src-builds-for(1) Filter a Sources file for the packages building for a certain architecture.
botch-find-fvs(1) Calculate a feedback vertex set.
botch-fix-cross-problems(1) Fix Packages files with the output of botch-cross-problems.
botch-graph-ancestors(1) Find all ancestors of a vertex in a graph in GraphML or dot format.
botch-graph-descendants(1) Find all descendants of a vertex in a graph in GraphML or dot format.
botch-graph-difference(1) Graph diff.
botch-graph-info(1) Show info about a buildgraph or sourcegraph.
botch-graph-neighborhood(1) Extract the neighborhood around a vertex.
botch-graph-shortest-path(1) Find the shortest path(s) between two vertices of a graph in GraphML or dot format.
botch-graph-sinks(1) Find all sinks (vertices without successors) in a graph in GraphML or dot format.
botch-graph-sources(1) Find all sources (vertices without predecessors) in a graph in GraphML or dot format.
botch-graph-tred(1) Find the transitive reduction of a graph in GraphML or dot format.
botch-graph2text(1) For each vertex in a graph print a formatted line on standard output.
botch-graphml2dot(1) Converts graphml to dot.
botch-latest-version(1) Only keep the latest version.
botch-ma-diff(1) Diff two packages files for differences in their multiarch values.
botch-multiarch-interpreter-problem(1) Find all arch:all packages that allow switching architectures.
botch-native(1) Execute botch tools in the native phase.
botch-optuniv(1) Self contained repository with minimal number of source packages.
botch-packages-diff(1) Create a diff between two Packages or Sources files.
botch-packages-difference(1) Calculate the asymmetric set difference.
botch-packages-intersection(1) Calculate the set intersection.
botch-packages-union(1) Calculate the set union.
botch-partial-order(1) Calculate the partial vertex order.
botch-print-stats(1) Find cycles, selfcycles, amount of cycles through edges, feedback arc and vertex set,.
botch-profile-build-fvs(1) Remove droppable dependencies from graph.
botch-remove-virtual-disjunctions(1) Remove virtual dependency disjunctions.
botch-src2bin(1) Turn source packages into their binary packages.
botch-stat-html(1) Turn the JSON output of botch-print-stats into human readable HTML.
botch-transition(1) Calculate a transition order.
botch-wanna-build-sortblockers(1) Importance of source packages for ports.
botch-y-u-b-d-transitive-essential(1) Find out why source packages are B-D transitive essential.
botch-y-u-no-bootstrap(1) Find out why Debian cannot be bootstrapped.
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_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_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_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_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_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_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.
BSD::arc4random(3pm) Perl interface to the arc4 random number generator.
BSD::Resource(3pm) BSD process resource limit and priority functions.
bucardo(1p) Utility script for controlling the Bucardo program.
Bucardo(3pm) Postgres multi-master replication system.
Bundle::Apache2(3pm) Install Apache mod_perl2 and related modules.
Bundle::ApacheTest(3pm) A bundle to install all Apache-Test related modules.
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::Object::InsideOut(3pm) A bundle of modules for full Object::InsideOut support.
Business::FraudDetect(3pm) A cohort to Business::OnlinePayment.
Business::FraudDetect::preCharge(3pm) Backend for Business::FraudDetect (part of Business::OnlinePayment).
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::OnlinePayment(3pm) Perl extension for online payment processing.
Business::OnlinePayment::HTTPS(3pm) Base class for HTTPS payment APIs.
Business::OnlinePayment::PaymenTech(3pm) Chase Paymentech 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.
bytes(3perl) Perl pragma to expose the individual bytes of characters.
Cache::FastMmap(3pm) Uses an mmap'ed file to act as a shared memory interprocess cache.
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::Mmap(3pm) Shared data cache using memory mapped files.
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.
camera-calib(1) GUI for calibrating a monocular camera using a checker-board.
Capture::Tiny(3pm) Capture STDOUT and STDERR from Perl, XS or external programs.
carmen2rawlog(1) Convert robotic datasets between CARMEN and Rawlog formats.
carmen2simplemap(1) Convert robotic datasets between CARMEN and simplemap formats.
Carp(3perl) Alternative warn and die for modules.
Carp::Assert::More(3pm) Convenience wrappers around Carp::Assert.
Catalyst::Action::Deserialize(3pm) Deserialize Data in a Request.
Catalyst::Action::DeserializeMultiPart(3pm) Deserialize Data in a Multipart Request.
Catalyst::Action::REST(3pm) Automated REST Method Dispatching.
Catalyst::Action::REST::ForBrowsers(3pm) Automated REST Method Dispatching that Accommodates Browsers.
Catalyst::Action::Serialize(3pm) Serialize Data in a Response.
Catalyst::Action::SerializeBase(3pm) Base class for Catalyst::Action::Serialize and.
Catalyst::ActionRole::NeedsLogin(3pm) Checks if a user is logged in and if not redirects him to login page.
Catalyst::Authentication::Credential::HTTP(3pm) HTTP Basic and Digest authentication for Catalyst.
Catalyst::Authentication::Realm::SimpleDB(3pm) A simplified Catalyst authentication configurator.
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::IMAP(3pm) Authentication store accessing an IMAP server.
Catalyst::Authentication::Store::IMAP::User(3pm) An authentication user for IMAP.
Catalyst::Controller::HTML::FormFu(3pm) Catalyst integration for HTML::FormFu.
Catalyst::Controller::REST(3pm) A RESTful controller.
Catalyst::Helper::HTML::FormFu(3pm) Helper to deploy HTML::FormFu template files.
Catalyst::Plugin::Captcha(3pm) Create and validate Captcha for Catalyst.
Catalyst::Plugin::Scheduler(3pm) Schedule events to run in a cron-like fashion.
Catalyst::Plugin::Static::Simple(3pm) Make serving static pages painless.
Catalyst::Request::REST(3pm) A REST-y subclass of Catalyst::Request.
Catalyst::Request::REST::ForBrowsers(3pm) A Catalyst::Request::REST subclass for dealing with browsers.
Catalyst::TraitFor::Request::REST(3pm) A role to apply to Catalyst::Request giving it REST methods and.
Catalyst::TraitFor::Request::REST::ForBrowsers(3pm) A request trait for REST and browsers.
CatalystX::SimpleLogin(3pm) Provide a simple Login controller which can be reused.
CatalystX::SimpleLogin::Controller::Login(3pm) Configurable login controller.
CatalystX::SimpleLogin::Form::Login(3pm) Validation for the login form.
CatalystX::SimpleLogin::Form::LoginOpenID(3pm) OpenID validation role for the login form.
CatalystX::SimpleLogin::Manual(3pm) How to use and customise CatalystX::SimpleLogin.
CatalystX::SimpleLogin::TraitFor::Controller::Login::Logout(3pm) Log users out.
CatalystX::SimpleLogin::TraitFor::Controller::Login::OpenID(3pm) Allows a User to login via OpenID.
CatalystX::SimpleLogin::TraitFor::Controller::Login::RenderAsTTTemplate(3pm) Render a login form with no template.
CatalystX::SimpleLogin::TraitFor::Controller::Login::WithRedirect(3pm) Redirect users who login back to the page.
catmandu(1p) LibreCat command line tools.
Catmandu(3pm) A data toolkit.
Catmandu::Addable(3pm) Base class for all Catmandu modules need to implement add.
Catmandu::ArrayIterator(3pm) Convert an arrayref to an Iterable object.
Catmandu::Bag(3pm) A Catmandu::Store compartment to persist data.
Catmandu::Bag::IdGenerator(3pm) A base role for bag identifier generators.
Catmandu::Bag::IdGenerator::Mock(3pm) Generator of increasing identifiers for bags.
Catmandu::Bag::IdGenerator::UUID(3pm) Generator of UUID identifiers for bags.
Catmandu::Buffer(3pm) A base class for modules that need an array buffer.
Catmandu::CLI(3pm) The App::Cmd application class for the catmandu command line script.
Catmandu::Cmd(3pm) A base class for extending the Catmandu command line.
Catmandu::Cmd::compile(3pm) Compile a Fix into Perl (for debugging).
Catmandu::Cmd::config(3pm) Export the Catmandu config.
Catmandu::Cmd::convert(3pm) Convert objects.
Catmandu::Cmd::copy(3pm) Copy objects from one store to another.
Catmandu::Cmd::count(3pm) Count the number of objects in a bag.
Catmandu::Cmd::delete(3pm) Delete objects from a store.
Catmandu::Cmd::drop(3pm) Drop a store or one of its bags.
Catmandu::Cmd::export(3pm) Export objects from a store.
Catmandu::Cmd::help(3pm) Show help.
Catmandu::Cmd::import(3pm) Import objects into a store.
Catmandu::Cmd::info(3pm) List installed Catmandu modules.
Catmandu::Cmd::run(3pm) Run a fix command.
Catmandu::Cmd::stream(3pm) Import and export streams into a Catmandu::FileStore.
Catmandu::Cmd::touch(3pm) Add the current datetime to the objects in a bag.
Catmandu::Counter(3pm) A Base class for modules who need to count things.
Catmandu::CQLSearchable(3pm) Optional role for CQL searchable stores.
Catmandu::Droppable(3pm) Optional role for droppable stores or bags.
Catmandu::Env(3pm) A catmandu configuration file loader.
Catmandu::Error(3pm) Catmandu error hierarchy.
Catmandu::Exporter(3pm) Namespace for packages that can export.
Catmandu::Exporter::Count(3pm) A exporter that counts things.
Catmandu::Exporter::CSV(3pm) A CSV exporter.
Catmandu::Exporter::JSON(3pm) A JSON exporter.
Catmandu::Exporter::MAB2(3pm) Package that exports MAB2 data.
Catmandu::Exporter::Mock(3pm) A exporter that doesn't export anything.
Catmandu::Exporter::Multi(3pm) Export you data to multiple exporters.
Catmandu::Exporter::Null(3pm) A expoter that doesn't export anything.
Catmandu::Exporter::RDF(3pm) Serialize RDF data.
Catmandu::Exporter::Template(3pm) A TT2 Template exporter in Catmandu style.
Catmandu::Exporter::Text(3pm) A Text exporter.
Catmandu::Exporter::TSV(3pm) A tab-delimited TSV exporter.
Catmandu::Exporter::XML(3pm) Serialize and export XML documents.
Catmandu::Exporter::XSD(3pm) Export and validate XML documents.
Catmandu::Exporter::YAML(3pm) A YAML exporter.
Catmandu::FileBag(3pm) A Catmandu::FileStore compartment to persist binary data.
Catmandu::FileBag::Index(3pm) Flag a Bag as a FileStore Index.
Catmandu::FileStore(3pm) Namespace for packages that can make files persistent.
Catmandu::Fix(3pm) A Catmandu class used for data transformations.
Catmandu::Fix::add(3pm) Shortcut for Catmandu::Fix::add_field.
Catmandu::Fix::add_field(3pm) Add or change the value of a HASH key or ARRAY index.
Catmandu::Fix::add_to_exporter(3pm) Export a record as side effect.
Catmandu::Fix::add_to_store(3pm) Add matching values to a store as a side effect.
Catmandu::Fix::append(3pm) Add a suffix to the value of a field.
Catmandu::Fix::aref_query(3pm) Copy values of RDF in aREF to a new field.
Catmandu::Fix::array(3pm) Creates an array out of a hash.
Catmandu::Fix::assoc(3pm) Associate two values as a hash key and value.
Catmandu::Fix::Base(3pm) Base class for all code emitting Catmandu fixes.
Catmandu::Fix::Bind(3pm) A wrapper for Catmandu::Fix-es.
Catmandu::Fix::Bind::benchmark(3pm) A binder that calculates the execution time of Fix functions.
Catmandu::Fix::Bind::Group(3pm) A role for a binder that executes all fixes as one group.
Catmandu::Fix::Bind::hashmap(3pm) A binder to add key/value pairs to an internal hashmap.
Catmandu::Fix::Bind::identity(3pm) A binder that doesn't influence computation.
Catmandu::Fix::Bind::importer(3pm) A binder runs fixes on records from an importer.
Catmandu::Fix::Bind::iterate(3pm) A binder iterates fixes in a loop.
Catmandu::Fix::Bind::list(3pm) A binder that computes Fix-es for every element in a list.
Catmandu::Fix::Bind::mab_each(3pm) A binder that loops over MAB2 fields.
Catmandu::Fix::Bind::maybe(3pm) A binder that skips fixes if one returns undef or dies.
Catmandu::Fix::Bind::timeout(3pm) Run fixes that should run within a time limit.
Catmandu::Fix::Bind::visitor(3pm) A binder that computes Fix-es for every element in record.
Catmandu::Fix::Bind::with(3pm) A binder that computes Fix-es in the context of a path.
Catmandu::Fix::capitalize(3pm) Capitalize the value of a key.
Catmandu::Fix::clone(3pm) Create a clone of the data object.
Catmandu::Fix::code(3pm) Run arbitrary code as fix.
Catmandu::Fix::collapse(3pm) Convert nested data into a flat hash using the TT2 dot convention.
Catmandu::Fix::compact(3pm) Remove undefined values from an array.
Catmandu::Fix::Condition(3pm) Role for all Catmandu::Fix conditionals.
Catmandu::Fix::Condition::all_equal(3pm) Execute fixes when all path values equal a string value.
Catmandu::Fix::Condition::all_match(3pm) Only execute fixes if all path values match the given regex.
Catmandu::Fix::Condition::any_equal(3pm) Execute fixes when at least one of the path values equal a string value.
Catmandu::Fix::Condition::any_match(3pm) Only execute fixes if any path value matches the given regex.
Catmandu::Fix::Condition::exists(3pm) Only execute fixes if the path exists.
Catmandu::Fix::Condition::greater_than(3pm) Execute fixes when a field is greater than a value.
Catmandu::Fix::Condition::in(3pm) Only execute fixes the data in one path is contained in another.
Catmandu::Fix::Condition::is_array(3pm) Only execute fixes if all path values are arrays.
Catmandu::Fix::Condition::is_false(3pm) Only execute fixes if all path values are the boolean false, 0 or "false".
Catmandu::Fix::Condition::is_null(3pm) Only execute fixes if all path values are null.
Catmandu::Fix::Condition::is_number(3pm) Only execute fixes if all path values are numbers.
Catmandu::Fix::Condition::is_object(3pm) Only execute fixes if all path values are objects (unordered sets of.
Catmandu::Fix::Condition::is_string(3pm) Only execute fixes if all path values are strings.
Catmandu::Fix::Condition::is_true(3pm) Only execute fixes if all path values are the boolean true, 1 or "true".
Catmandu::Fix::Condition::less_than(3pm) Excute fixes when a field is less than a value.
Catmandu::Fix::Condition::mab_match(3pm) Conditionals on MAB2 fields.
Catmandu::Fix::Condition::SimpleAllTest(3pm) Base class to ease the construction of all match conditionals.
Catmandu::Fix::Condition::SimpleAnyTest(3pm) Base class to ease the construction of any match conditionals.
Catmandu::Fix::Condition::SimpleCompareTest(3pm) Base class to ease the construction of compare conditionals.
Catmandu::Fix::Condition::valid(3pm) Execute fixes if the data passes validation.
Catmandu::Fix::copy(3pm) Shortcut for Catmandu::Fix::copy_field.
Catmandu::Fix::copy_field(3pm) Copy the value of one field to a new field.
Catmandu::Fix::count(3pm) Replace the value of an array or hash field with its count.
Catmandu::Fix::downcase(3pm) Lowercase the value of a field.
Catmandu::Fix::error(3pm) Die with an error message.
Catmandu::Fix::expand(3pm) Convert a flat hash into nested data using the TT2 dot convention.
Catmandu::Fix::expand_date(3pm) Expand a date field into year, month and date.
Catmandu::Fix::export_to_string(3pm) Convert the value of field using a named exporter.
Catmandu::Fix::filter(3pm) Filter values out of an array based on a regular expression.
Catmandu::Fix::flatten(3pm) Flatten a nested array field.
Catmandu::Fix::format(3pm) Replace the value with a formatted (sprintf-like) version.
Catmandu::Fix::from_json(3pm) Replace a json field with the parsed value.
Catmandu::Fix::Has(3pm) Helper class for creating Fix-es with (optional) parameters.
Catmandu::Fix::hash(3pm) Creates a hash out of an array.
Catmandu::Fix::import(3pm) Change the value of a HASH key or ARRAY index by replacing its value with imported.
Catmandu::Fix::import_from_string(3pm) Import data from a string into an array ref, using a named importer.
Catmandu::Fix::include(3pm) Include fixes from another file.
Catmandu::Fix::index(3pm) Find all positions of a (sub)string in a field.
Catmandu::Fix::Inlineable(3pm) Role for all Catmandu fixes that can be inlined.
Catmandu::Fix::int(3pm) Convert a value to an integer.
Catmandu::Fix::join(3pm) Shortcut for Catmandu::Fix::join_field.
Catmandu::Fix::join_field(3pm) Join the ARRAY values of a field into a string.
Catmandu::Fix::log(3pm) Log::Any logger as fix.
Catmandu::Fix::lookup(3pm) Change the value of a HASH key or ARRAY index by looking up its value in a dictionary.
Catmandu::Fix::lookup_in_store(3pm) Change the value of a HASH key or ARRAY index by looking up its value in a.
Catmandu::Fix::mab_map(3pm) Copy mab values of one field to a new field.
Catmandu::Fix::move(3pm) Shortcut for Catmandu::Fix::move_field.
Catmandu::Fix::move_field(3pm) Move a field to another place in the data structure.
Catmandu::Fix::nothing(3pm) Does nothing (for testing).
Catmandu::Fix::parse_text(3pm) Parses a text into an array or hash of values.
Catmandu::Fix::Parser(3pm) The parser of the Catmandu::Fix language.
Catmandu::Fix::paste(3pm) Concatenate path values.
Catmandu::Fix::perlcode(3pm) Execute Perl code as fix function.
Catmandu::Fix::prepend(3pm) Add a prefix to the value of a field.
Catmandu::Fix::random(3pm) Create an random number in a field.
Catmandu::Fix::rdf_ldf_statements(3pm) Lookup an object into a LDF endpoint.
Catmandu::Fix::reject(3pm) Remove a record form the data.
Catmandu::Fix::remove(3pm) Shortcut for Catmandu::Fix::remove_field.
Catmandu::Fix::remove_field(3pm) Remove a field form the data.
Catmandu::Fix::rename(3pm) Rename fields with a regex.
Catmandu::Fix::replace_all(3pm) Search and replace using regex expressions.
Catmandu::Fix::retain(3pm) Delete everything except the paths given.
Catmandu::Fix::retain_field(3pm) Delete everything from a field except.
Catmandu::Fix::reverse(3pm) Reverse a string or an array.
Catmandu::Fix::search_in_store(3pm) Use the value as query, and replace it by a search object.
Catmandu::Fix::set(3pm) Shortcut for Catmandu::Fix::set_field.
Catmandu::Fix::set_array(3pm) Add or change the value of a HASH key or ARRAY index to an array.
Catmandu::Fix::set_field(3pm) Add or change the value of a HASH key or ARRAY index.
Catmandu::Fix::set_hash(3pm) Add or change the value of a HASH key or ARRAY index to a hash.
Catmandu::Fix::SimpleGetValue(3pm) Helper class for creating emit Fix-es.
Catmandu::Fix::sleep(3pm) Do nothing for a specified amount of time.
Catmandu::Fix::sort(3pm) Shortcut for Catmandu::Fix::sort_field.
Catmandu::Fix::sort_field(3pm) Sort the values of an array.
Catmandu::Fix::split(3pm) Shortcut for Catmandu::Fix::split_field.
Catmandu::Fix::split_field(3pm) Split a string value in a field into an ARRAY.
Catmandu::Fix::string(3pm) Convert a value to a string.
Catmandu::Fix::substring(3pm) Extract a substring out of the value of a field.
Catmandu::Fix::sum(3pm) Replace the value of an array field with the sum of its elements.
Catmandu::Fix::template(3pm) Add a value to the record based on a template.
Catmandu::Fix::to_json(3pm) Convert the value of a field to json.
Catmandu::Fix::trim(3pm) Trim leading and ending junk from the value of a field.
Catmandu::Fix::uniq(3pm) Strip duplicate values from an array.
Catmandu::Fix::upcase(3pm) Uppercase the value of a field.
Catmandu::Fix::uri_decode(3pm) Percent decode a URI.
Catmandu::Fix::uri_encode(3pm) Percent encode a URI.
Catmandu::Fix::vacuum(3pm) Delete all empty fields from your data.
Catmandu::Fix::xml_read(3pm) Parse XML to MicroXML.
Catmandu::Fix::xml_simple(3pm) Parse/convert XML to simple form.
Catmandu::Fix::xml_transform(3pm) Transform XML using XSLT stylesheet.
Catmandu::Fix::xml_write(3pm) Serialize XML.
Catmandu::Fix::xpath_map(3pm) Map values from a XML::LibXML::Element value to a field.
Catmandu::Fixable(3pm) A Catmandu role to apply fixes.
Catmandu::Hits(3pm) Iterable object that wraps Catmandu::Store search hits.
Catmandu::IdGenerator(3pm) A base role for identifier generators.
Catmandu::IdGenerator::Mock(3pm) Generator of increasing identifiers.
Catmandu::IdGenerator::UUID(3pm) Generator of UUID identifiers.
Catmandu::Importer(3pm) Namespace for packages that can import.
Catmandu::Importer::CSV(3pm) Package that imports CSV data.
Catmandu::Importer::DKVP(3pm) Delimited key-value pairs importer.
Catmandu::Importer::JSON(3pm) Package that imports JSON data.
Catmandu::Importer::MAB2(3pm) Package that imports MAB2 data.
Catmandu::Importer::Mock(3pm) Mock importer used for testing purposes.
Catmandu::Importer::MODS(3pm) Catmandu Importer for importing mods records.
Catmandu::Importer::Modules(3pm) List installed perl modules in a given namespace.
Catmandu::Importer::Multi(3pm) Chain multiple importers together.
Catmandu::Importer::Null(3pm) Null importer used for testing purposes.
Catmandu::Importer::RDF(3pm) Parse RDF data.
Catmandu::Importer::SRU(3pm) Package that imports SRU data.
Catmandu::Importer::SRU::Parser(3pm) Package transforms SRU responses into Perl.
Catmandu::Importer::SRU::Parser::mabxml(3pm) Package transforms SRU responses into Catmandu MAB2.
Catmandu::Importer::SRU::Parser::marcxml(3pm) Package transforms SRU responses into Catmandu MARC.
Catmandu::Importer::SRU::Parser::meta(3pm) Package transforms SRU responses metadta into a Perl hash.
Catmandu::Importer::SRU::Parser::mods(3pm) Package imports SRU responses with MODS records.
Catmandu::Importer::SRU::Parser::raw(3pm) Package transforms SRU responses into a Perl hash.
Catmandu::Importer::SRU::Parser::simple(3pm) Parse SRU records as simple XML.
Catmandu::Importer::SRU::Parser::struct(3pm) Transform SRU responses into structured XML records.
Catmandu::Importer::Text(3pm) Package that imports textual data.
Catmandu::Importer::TSV(3pm) Package that imports tab-separated values.
Catmandu::Importer::XML(3pm) Import serialized XML documents.
Catmandu::Importer::XSD(3pm) Import and validate serialized XML documents.
Catmandu::Importer::YAML(3pm) Package that imports YAML data.
Catmandu::Interactive(3pm) An interactive command line interpreter of the Fix language.
Catmandu::Introduction(3pm) An Introduction to Catmandu data processing toolkit.
Catmandu::Iterable(3pm) Base class for all iterable Catmandu classes.
Catmandu::Iterator(3pm) Base class for all Catmandu iterators.
Catmandu::Logger(3pm) A role for classes that need logging capabilities.
Catmandu::MAB2(3pm) Catmandu modules for working with MAB2 data.
Catmandu::MODS(3pm) Catmandu modules for working with MODS records.
Catmandu::MultiIterator(3pm) Chain multiple iterators together.
Catmandu::Paged(3pm) Base class for packages that need paging result sets.
Catmandu::Pluggable(3pm) A role for classes that need plugin capabilities.
Catmandu::Plugin::Datestamps(3pm) Automatically add datestamps to Catmandu::Store records.
Catmandu::Plugin::Readonly(3pm) Make stores or bags read-only.
Catmandu::Plugin::SideCar(3pm) Automatically update a parallel Catmandu::Store with metadata.
Catmandu::Plugin::Versioning(3pm) Automatically adds versioning to Catmandu::Store records.
Catmandu::RDF(3pm) Modules for handling RDF data within the Catmandu framework.
Catmandu::Sane(3pm) Package boilerplate.
Catmandu::Searchable(3pm) Optional role for searchable stores.
Catmandu::Serializer(3pm) Base class for all Catmandu Serializers.
Catmandu::Serializer::json(3pm) A (de)serializer from and to json.
Catmandu::SRU(3pm) Catmandu module for working with SRU data.
Catmandu::Store(3pm) Namespace for packages that can make data persistent.
Catmandu::Store::ElasticSearch(3pm) A searchable store backed by Elasticsearch.
Catmandu::Store::ElasticSearch::Bag(3pm) Catmandu::Bag implementation for Elasticsearch.
Catmandu::Store::ElasticSearch::Searcher(3pm) Searcher implementation for Elasticsearch.
Catmandu::Store::File::Memory(3pm) A Catmandu::FileStore to keep files in memory.
Catmandu::Store::File::Memory::Bag(3pm) Index of all "files" in a Catmandu::Store::File::Memory "folder".
Catmandu::Store::File::Memory::Index(3pm) Index of all "Folders" in a Catmandu::Store::File::Memory.
Catmandu::Store::File::Multi(3pm) A store that adds files to multiple stores.
Catmandu::Store::File::Multi::Bag(3pm) Index of all "files" in a Catmandu::Store::File::Multi "folder".
Catmandu::Store::File::Multi::Index(3pm) Index of all "Folders" in a Catmandu::Store::File::Multi.
Catmandu::Store::File::Simple(3pm) A Catmandu::FileStore to store files on disk.
Catmandu::Store::File::Simple::Bag(3pm) Index of all "files" in a Catmandu::Store::File::Simple "folder".
Catmandu::Store::File::Simple::Index(3pm) Index of all "Folders" in a Catmandu::Store::File::Simple.
Catmandu::Store::Hash(3pm) An in-memory store.
Catmandu::Store::Hash::Bag(3pm) Bag implementation for the Hash store.
Catmandu::Store::Lucy(3pm) A searchable store backed by Lucy.
Catmandu::Store::Lucy::Bag(3pm)
Catmandu::Store::MongoDB(3pm) A searchable store backed by MongoDB.
Catmandu::Store::MongoDB::Bag(3pm) Catmandu::Bag implementation for MongoDB.
Catmandu::Store::MongoDB::CQL(3pm) Converts a CQL query string to a MongoDB query string.
Catmandu::Store::Multi(3pm) A store that adds data to multiple stores.
Catmandu::Store::Multi::Bag(3pm) Bag implementation for the Multi store.
Catmandu::TabularExporter(3pm) Base role for tabular exporters like CSV.
Catmandu::Template(3pm) Catmandu modules for working with templates.
Catmandu::Transactional(3pm) Optional role for transactional stores.
Catmandu::Util(3pm) A collection of utility functions.
Catmandu::Validator(3pm) Namespace for packages that can validate records in Catmandu.
Catmandu::Validator::Simple(3pm) Simple Validator for Catmandu.
Catmandu::XML(3pm) Modules for handling XML data within the Catmandu framework.
Catmandu::XML::Transformer(3pm) Utility module for XML/XSLT processing.
Catmandu::XSD(3pm) Modules for handling XML data with XSD compilation.
CBOR::XS(3pm) Concise Binary Object Representation (CBOR, RFC7049).
ccon(1p) Cluster administration tool.
CDB_File(3pm) Perl extension for access to cdb databases.
cdck(1) Simple CD/DVD check program.
Cflow(3pm) Find "interesting" flows in raw IP flow files.
CGI(3pm) Handle Common Gateway Interface requests and responses.
CGI::Ajax(3pm) A perl-specific system for writing Asynchronous web applications.
CGI::Application::Plugin::Authentication(3pm) Authentication framework for CGI::Application.
CGI::Application::Plugin::Authentication::Display(3pm) Generate bits of HTML needed for authentication.
CGI::Application::Plugin::Authentication::Display::Basic(3pm) XHTML compliant no frills login display driver.
CGI::Application::Plugin::Authentication::Display::Classic(3pm) Login box that works out of the box.
CGI::Application::Plugin::Authentication::Driver(3pm) Base module for building driver classes for.
CGI::Application::Plugin::Authentication::Driver::Authen::Simple(3pm) Authen::Simple Authentication driver.
CGI::Application::Plugin::Authentication::Driver::CDBI(3pm)
CGI::Application::Plugin::Authentication::Driver::DBI(3pm) DBI Authentication driver.
CGI::Application::Plugin::Authentication::Driver::DBIC(3pm) DBIx::Class Authentication Driver.
CGI::Application::Plugin::Authentication::Driver::Dummy(3pm) Dummy Authentication driver which lets anyone.
CGI::Application::Plugin::Authentication::Driver::Filter::crypt(3pm) Crypt Filter.
CGI::Application::Plugin::Authentication::Driver::Filter::lc(3pm) Lowercase Filter.
CGI::Application::Plugin::Authentication::Driver::Filter::md5(3pm) MD5 filter.
CGI::Application::Plugin::Authentication::Driver::Filter::sha1(3pm) SHA1 Password filter.
CGI::Application::Plugin::Authentication::Driver::Filter::strip(3pm) Filter that strips whitespace from the.
CGI::Application::Plugin::Authentication::Driver::Filter::uc(3pm) Uppercase Filter.
CGI::Application::Plugin::Authentication::Driver::Generic(3pm) Generic Authentication driver.
CGI::Application::Plugin::Authentication::Driver::HTPasswd(3pm) HTPasswd Authentication driver.
CGI::Application::Plugin::Authentication::Store(3pm) Base module for building storage classes for the.
CGI::Application::Plugin::Authentication::Store::Cookie(3pm) Cookie based Store.
CGI::Application::Plugin::Authentication::Store::Session(3pm) Session based Store.
CGI::Carp(3pm) CGI routines for writing to the HTTPD (or other) error log.
CGI::Compile(3pm) Compile .cgi scripts to a code reference like ModPerl::Registry.
CGI::Cookie(3pm) Interface to HTTP Cookies.
CGI::Emulate::PSGI(3pm) PSGI adapter for CGI.
CGI::Fast(3pm) CGI Interface for Fast CGI.
CGI::HTML::Functions(3pm) Documentation for CGI.pm Legacy HTML Functionality.
CGI::Parse::PSGI(3pm) Parses CGI output and creates PSGI response out of it.
CGI::Pretty(3pm) Module to produce nicely formatted HTML code.
CGI::Push(3pm) Simple Interface to Server Push.
CGI::Struct::XS(3pm) Build structures from CGI data. Fast.
CGI::Toggle(3pm)
CGI::Util(3pm) Internal utilities used by CGI module.
change_paired_read_orientation(1p) Change the orientation of paired-end reads in a FASTA file.
charnames(3perl) Access to Unicode character names and named character sequences; also define character names.
Chart::Strip(3pm) Draw strip chart type graphs.
Chatbot::Eliza(3pm) A clone of the classic Eliza program.
check_perldiag(1p) Check a localized version of perldiag for consistency.
check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_archive_ready(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_autovac_freeze(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_backends(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_bloat(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_checkpoint(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_cluster_id(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_commitratio(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_connection(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_custom_query(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_database_size(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_dbstats(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_disabled_triggers(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_disk_space(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_fsm_pages(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_fsm_relations(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_hitratio(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_hot_standby_delay(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_index_size(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_indexes_size(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_last_analyze(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_last_autoanalyze(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_last_autovacuum(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_last_vacuum(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_listener(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_locks(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_logfile(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_new_version_bc(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_new_version_box(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_new_version_cp(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_new_version_pg(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_new_version_tnm(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgagent_jobs(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_cl_active(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_cl_waiting(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_maxwait(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_sv_active(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_sv_idle(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_sv_login(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_sv_tested(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgb_pool_sv_used(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgbouncer_backends(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_pgbouncer_checksum(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_prepared_txns(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_query_runtime(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_query_time(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_relation_size(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_replicate_row(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_replication_slots(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_same_schema(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_sequence(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_settings_checksum(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_slony_status(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_table_size(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_timesync(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_total_relation_size(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_txn_idle(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_txn_time(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_txn_wraparound(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_version(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
check_postgres_wal_files(1p) ↣ check_postgres(1p) A Postgres monitoring script for Nagios, MRTG, Cacti, and others.
Chemistry::Elements(3pm) Perl extension for working with Chemical Elements.
Chipcard::PCSC(3pm) Smart card reader interface library.
Chipcard::PCSC::Card(3pm) Smart card communication library.
CiderWebmail(3pm) Catalyst based application.
CiderWebmail::Cache(3pm)
CiderWebmail::Controller::Addressbook(3pm) Catalyst Controller.
CiderWebmail::Controller::Mailbox(3pm) Catalyst Controller.
CiderWebmail::Controller::Managesieve(3pm)
CiderWebmail::Controller::Message(3pm) Catalyst Controller.
CiderWebmail::Controller::Root(3pm) Root Controller for CiderWebmail.
CiderWebmail::DB(3pm)
CiderWebmail::DB::Result::Addressbook(3pm)
CiderWebmail::DB::Result::DbVersion(3pm)
CiderWebmail::DB::Result::Settings(3pm)
CiderWebmail::Error(3pm) Error Handling in CiderWebmail.
CiderWebmail::Header(3pm)
CiderWebmail::Mailbox(3pm)
CiderWebmail::Message(3pm)
CiderWebmail::Message::Forwarded(3pm) Represents a message/rfc822 body part.
CiderWebmail::Model::DB(3pm) Catalyst DBIC Schema Model =head1 SYNOPSIS.
CiderWebmail::Model::IMAPClient(3pm) Catalyst Model.
CiderWebmail::Model::Managesieve(3pm)
CiderWebmail::Part(3pm)
CiderWebmail::Part::Attachment(3pm)
CiderWebmail::Part::Dummy(3pm)
CiderWebmail::Part::ImageJpeg(3pm)
CiderWebmail::Part::MessageDeliveryStatus(3pm)
CiderWebmail::Part::RFC822(3pm)
CiderWebmail::Part::Root(3pm)
CiderWebmail::Part::TextCalendar(3pm)
CiderWebmail::Part::TextHtml(3pm)
CiderWebmail::Part::TextPlain(3pm)
CiderWebmail::Util(3pm)
CiderWebmail::View::Petal(3pm) Catalyst View.
CiderWebmail::View::RFC822(3pm) Catalyst View for sending e-Mail.
circos(1)
Clang(3pm) Perl bindings to the Clang compiler's indexing interface.
Clang::Cursor(3pm) Clang cursor class.
Clang::CursorKind(3pm) Clang cursor kind class.
Clang::Diagnostic(3pm) Clang diagnostic class.
Clang::Index(3pm) Clang index class.
Clang::TUnit(3pm) Clang translation unit class.
Clang::Type(3pm) Clang type class.
Clang::TypeKind(3pm) Clang type kind class.
Class::Accessor(3pm) Automated accessor generation.
Class::Accessor::Fast(3pm) Faster, but less expandable, accessors.
Class::Accessor::Faster(3pm) Even faster, but less expandable, accessors.
Class::Base(3pm) Useful base class for deriving other modules.
Class::C3(3pm) A pragma to use the C3 method resolution order algorithm.
Class::C3::next(3pm) Pure-perl next::method and friends.
Class::C3::XS(3pm) XS speedups for Class::C3.
Class::Container(3pm) Glues object frameworks together transparently.
Class::Date(3pm) Class for easy date and time manipulation.
Class::DBI::Pager(3pm) Pager utility for Class::DBI.
Class::Field(3pm) Class Field Accessor Generator.
Class::Forward(3pm) Namespace Dispatch and Resolution.
Class::Handle(3pm) Create objects that are handles to Classes.
Class::Inner(3pm) A perlish implementation of Java like inner classes.
Class::InsideOut(3pm) A safe, simple inside-out object construction kit.
Class::InsideOut::Manual::About(3pm) Guide to this and other implementations of the inside-out technique.
Class::InsideOut::Manual::Advanced(3pm) Guide to advanced usage.
Class::Inspector(3pm) Get information about a class and its structure.
Class::Inspector::Functions(3pm) Get information about a class and its structure.
Class::Load::XS(3pm) XS implementation of parts of Class::Load.
Class::Loader(3pm) Load modules and create objects on demand.
Class::MethodMaker(3pm) Create generic methods for OO Perl.
Class::MethodMaker::array(3pm) Create methods for handling an array value.
Class::MethodMaker::Constants(3pm) The Constants Class for Class::MethodMaker.
Class::MethodMaker::Engine(3pm) The parameter passing, method installation & non-data-structure methods of.
Class::MethodMaker::hash(3pm) Create methods for handling a hash value.
Class::MethodMaker::OptExt(3pm) Constants for C::MM's option extension mechanism.
Class::MethodMaker::scalar(3pm) Create methods for handling a scalar value.
Class::MethodMaker::V1Compat(3pm) V1 compatibility code for C::MM.
Class::Mix(3pm) Dynamic class mixing.
Class::MixinFactory(3pm) Class Factory with Selection of Mixins.
Class::MixinFactory::Changes(3pm) Revision history for Class::MixinFactory.
Class::MixinFactory::Factory(3pm) Class Factory with Selection of Mixins.
Class::MixinFactory::HasAFactory(3pm) Delegates to a Factory.
Class::MixinFactory::InsideOutAttr(3pm) Method maker for inside out data.
Class::MixinFactory::NEXT(3pm) Superclass method redispatch for mixins.
Class::MixinFactory::ReadMe(3pm) About the Mixin Class Factory.
Class::MOP(3pm) A Meta Object Protocol for Perl 5.
Class::MOP::Attribute(3pm) Attribute Meta Object.
Class::MOP::Class(3pm) Class Meta Object.
Class::MOP::Class::Immutable::Trait(3pm) Implements immutability for metaclass objects.
Class::MOP::Deprecated(3pm) Manages deprecation warnings for Class::MOP.
Class::MOP::Instance(3pm) Instance Meta Object.
Class::MOP::Method(3pm) Method Meta Object.
Class::MOP::Method::Accessor(3pm) Method Meta Object for accessors.
Class::MOP::Method::Constructor(3pm) Method Meta Object for constructors.
Class::MOP::Method::Generated(3pm) Abstract base class for generated methods.
Class::MOP::Method::Inlined(3pm) Method base class for methods which have been inlined.
Class::MOP::Method::Meta(3pm) Method Meta Object for "meta" methods.
Class::MOP::Method::Wrapped(3pm) Method Meta Object for methods with before/after/around modifiers.
Class::MOP::MiniTrait(3pm) Extremely limited trait application.
Class::MOP::Mixin(3pm) Base class for mixin classes.
Class::MOP::Mixin::AttributeCore(3pm) Core attributes shared by attribute metaclasses.
Class::MOP::Mixin::HasAttributes(3pm) Methods for metaclasses which have attributes.
Class::MOP::Mixin::HasMethods(3pm) Methods for metaclasses which have methods.
Class::MOP::Mixin::HasOverloads(3pm) Methods for metaclasses which have overloads.
Class::MOP::Module(3pm) Module Meta Object.
Class::MOP::Object(3pm) Base class for metaclasses.
Class::MOP::Overload(3pm) Overload Meta Object.
Class::MOP::Package(3pm) Package Meta Object.
Class::Refresh(3pm) Refresh your classes during runtime.
Class::Struct(3perl) Declare struct-like datatypes as Perl classes.
Class::Unload(3pm) Unload a class.
Class::WhiteHole(3pm) Base class to treat unhandled method calls as errors.
Class::XSAccessor(3pm) Generate fast XS accessors without runtime compilation.
Class::XSAccessor::Array(3pm) Generate fast XS accessors without runtime compilation.
Class::XSAccessor::Heavy(3pm) Guts you don't care about.
cleo(1p) Play back shell commands for live demonstrations.
Clone(3pm) Recursively copy Perl datatypes.
Clone::Choose(3pm) Choose appropriate clone utility.
Clone::PP(3pm) Recursively copy Perl datatypes.
clusterssh(1) ↣ cssh(1p) Cluster administration tool.
cme(1p) Check or edit configuration data with Config::Model.
Code::TidyAll(3pm) Engine for tidyall, your all-in-one code tidier and validator.
Code::TidyAll::Cache(3pm) A simple caching engine which stores key/value pairs.
Code::TidyAll::CacheModel(3pm) Caching model for Code::TidyAll.
Code::TidyAll::CacheModel::Shared(3pm) Shared cache model for Code::TidyAll.
Code::TidyAll::Config::INI::Reader(3pm) A Config::INI::Reader subclass which can handle a key appearing more than.
Code::TidyAll::Git::Precommit(3pm) Git pre-commit hook that requires files to be tidyall'd.
Code::TidyAll::Git::Prereceive(3pm) Git pre-receive hook that requires files to be tidyall'd.
Code::TidyAll::Git::Util(3pm) Utilities for the git hook classes.
Code::TidyAll::Plugin(3pm) Create plugins for tidying or validating code.
Code::TidyAll::Plugin::CSSUnminifier(3pm)
Code::TidyAll::Plugin::JSBeautify(3pm) Use js-beautify with tidyall.
Code::TidyAll::Plugin::JSHint(3pm) Use jshint with tidyall.
Code::TidyAll::Plugin::JSLint(3pm) Use jslint with tidyall.
Code::TidyAll::Plugin::JSON(3pm) Use the JSON::MaybeXS module to tidy JSON documents with tidyall.
Code::TidyAll::Plugin::MasonTidy(3pm) Use masontidy with tidyall.
Code::TidyAll::Plugin::PerlCritic(3pm) Use perlcritic with tidyall.
Code::TidyAll::Plugin::PerlTidy(3pm) Use perltidy with tidyall.
Code::TidyAll::Plugin::PerlTidySweet(3pm) Use perltidy-sweet with tidyall.
Code::TidyAll::Plugin::PHPCodeSniffer(3pm) Use phpcs with tidyall.
Code::TidyAll::Plugin::PodChecker(3pm) Use podchecker with tidyall.
Code::TidyAll::Plugin::PodSpell(3pm) Use Pod::Spell + ispell with tidyall.
Code::TidyAll::Plugin::PodTidy(3pm) Use podtidy with tidyall.
Code::TidyAll::Plugin::SortLines(3pm) Sort the lines in a file.
Code::TidyAll::Plugin::SortLines::Naturally(3pm) Sort lines of a file using Unicode::Collate::Locale.
Code::TidyAll::Result(3pm) Result returned from processing a file/source.
Code::TidyAll::Role::HasIgnore(3pm) A role for any class that has a list of ignored paths specified in zglob.
Code::TidyAll::Role::RunsCommand(3pm) A role for plugins which run external commands.
Code::TidyAll::Role::Tempdir(3pm) Provides a _tempdir attribute for Code::TidyAll classes.
Code::TidyAll::SVN::Precommit(3pm) Subversion pre-commit hook that requires files to be tidyall'd.
Code::TidyAll::SVN::Util(3pm) Utility functions for SVN hooks.
Code::TidyAll::Util(3pm) Utility functions for internal use by Code::TidyAll.
Code::TidyAll::Util::Zglob(3pm) Test::Glob hacked up to support "**/*".
Collectd::Unixsock(3pm) Abstraction layer for accessing the functionality by collectd's unixsock plugin.
common::sense(3pm) Save a tree AND a kitten, use common::sense!.
Compress::Bzip2(3pm) Interface to Bzip2 compression library.
Compress::LZ4(3pm) Perl interface to the LZ4 (de)compressor.
Compress::Raw::Bzip2(3perl) Low-Level Interface to bzip2 compression library.
Compress::Raw::Bzip2(3pm) Low-Level Interface to bzip2 compression library.
Compress::Raw::Lzma(3pm) Low-Level Interface to lzma compression library.
Compress::Raw::Zlib(3perl) Low-Level Interface to zlib compression library.
Compress::Raw::Zlib(3pm) Low-Level Interface to zlib compression library.
Compress::Zlib(3perl) Interface to zlib compression library.
Config(3perl) Access Perl configuration information.
Config::AutoConf(3pm) A module to implement some of AutoConf macros in pure perl.
Config::Extensions(3perl) Hash lookup of which core extensions were built.
Config::GitLike(3pm) Git-compatible config file parsing.
Config::GitLike::Cascaded(3pm) Git-like config file parsing with cascaded inheritance.
Config::GitLike::Git(3pm) Load Git configuration files.
Config::MethodProxy(3pm) Integrate dynamic logic with static configuration.
Config::Model(3pm) Create tools to validate, migrate and edit configuration files.
Config::Model::Annotation(3pm) Read and write configuration annotations.
Config::Model::AnyId(3pm) Base class for hash or list element.
Config::Model::AnyThing(3pm) Base class for configuration tree item.
Config::Model::Approx(3pm) Approx configuration file editor.
Config::Model::Backend::Any(3pm) Virtual class for other backends.
Config::Model::Backend::Approx(3pm) Approx configuration file editor.
Config::Model::Backend::Augeas(3pm) Read and write config data through Augeas.
Config::Model::Backend::CdsFile(3pm) Read and write config as a Cds data structure.
Config::Model::Backend::Dpkg(3pm) Read and write config as plain file.
Config::Model::Backend::Dpkg::Autopkgtest(3pm) Read and write Debian Dpkg Autopkgtest information.
Config::Model::Backend::Dpkg::Control(3pm) Read and write Debian Dpkg control information.
Config::Model::Backend::Dpkg::Copyright(3pm) Read and write Debian Dpkg License information.
Config::Model::Backend::Dpkg::Patch(3pm) Read and write Debian Dpkg Patch information.
Config::Model::Backend::DpkgSyntax(3pm) Role to read and write files with Dpkg syntax.
Config::Model::Backend::Fstab(3pm) Read and write config from fstab file.
Config::Model::Backend::IniFile(3pm) Read and write config as a INI file.
Config::Model::Backend::Json(3pm) Read and write config as a JSON data structure.
Config::Model::Backend::OpenSsh(3pm) Common backend methods for Ssh and Sshd backends.
Config::Model::Backend::OpenSsh::Ssh(3pm) Backend for ssh configuration files.
Config::Model::Backend::OpenSsh::Sshd(3pm) Backend for sshd configuration files.
Config::Model::Backend::PerlFile(3pm) Read and write config as a Perl data structure.
Config::Model::Backend::PlainFile(3pm) Read and write config as plain file.
Config::Model::Backend::ShellVar(3pm) Read and write config as a "SHELLVAR" data structure.
Config::Model::Backend::Systemd(3pm) R/W backend for systemd configurations files.
Config::Model::Backend::Systemd::Layers(3pm) Role that provides Systemd default directories.
Config::Model::Backend::Systemd::Unit(3pm) R/W backend for systemd unit files.
Config::Model::Backend::Yaml(3pm) Read and write config as a YAML data structure.
Config::Model::BackendMgr(3pm) Load configuration node on demand.
Config::Model::BackendTrackOrder(3pm) Track read order of elements from configuration.
Config::Model::CheckList(3pm) Handle check list element.
Config::Model::Cookbook::CreateModelFromDoc(3pm) Create a configuration model from application documentation.
Config::Model::Describe(3pm) Provide a description of a node element.
Config::Model::Dpkg(3pm) Edit and validate Dpkg source files.
Config::Model::Dpkg::Copyright(3pm) Fill the File sections of debian/copyright file.
Config::Model::Dpkg::Dependency(3pm) Checks Debian dependency declarations.
Config::Model::DumpAsData(3pm) Dump configuration content as a perl data structure.
Config::Model::Dumper(3pm) Serialize data of config tree.
Config::Model::Exception(3pm) Exception mechanism for configuration model.
Config::Model::FuseUI(3pm) Fuse virtual file interface for Config::Model.
Config::Model::HashId(3pm) Handle hash element for configuration model.
Config::Model::IdElementReference(3pm) Refer to id element(s) and extract keys.
Config::Model::Instance(3pm) Instance of configuration tree.
Config::Model::Iterator(3pm) Iterates forward or backward a configuration tree.
Config::Model::Itself(3pm) Model editor for Config::Model.
Config::Model::Itself::BackendDetector(3pm) Detect available read/write backends usable by config models.
Config::Model::LcdProc(3pm) Edit and validate LcdProc configuration file.
Config::Model::Lister(3pm) List available models and applications.
Config::Model::ListId(3pm) Handle list element for configuration model.
Config::Model::Loader(3pm) Load serialized data into config tree.
Config::Model::Manual::ModelCreationAdvanced(3pm) Creating a model with advanced features.
Config::Model::Manual::ModelCreationIntroduction(3pm) Introduction to model creation with Config::Model.
Config::Model::models::Approx(3pm) Configuration class Approx.
Config::Model::models::Dpkg(3pm) Configuration class Dpkg.
Config::Model::models::Dpkg::BugFiles(3pm) Configuration class Dpkg::BugFiles.
Config::Model::models::Dpkg::BugFiles::Control(3pm) Configuration class Dpkg::BugFiles::Control.
Config::Model::models::Dpkg::Control(3pm) Configuration class Dpkg::Control.
Config::Model::models::Dpkg::Control::Binary(3pm) Configuration class Dpkg::Control::Binary.
Config::Model::models::Dpkg::Control::Source(3pm) Configuration class Dpkg::Control::Source.
Config::Model::models::Dpkg::Copyright(3pm) Configuration class Dpkg::Copyright.
Config::Model::models::Dpkg::Copyright::Content(3pm) Configuration class Dpkg::Copyright::Content.
Config::Model::models::Dpkg::Copyright::FileLicense(3pm) Configuration class Dpkg::Copyright::FileLicense.
Config::Model::models::Dpkg::Copyright::FillBlanks(3pm) Configuration class Dpkg::Copyright::FillBlanks.
Config::Model::models::Dpkg::Copyright::FillBlanks::Pattern(3pm) Configuration class.
Config::Model::models::Dpkg::Copyright::GlobalLicense(3pm) Configuration class Dpkg::Copyright::GlobalLicense.
Config::Model::models::Dpkg::Copyright::LicenseSpec(3pm) Configuration class Dpkg::Copyright::LicenseSpec.
Config::Model::models::Dpkg::Copyright::ScanPatterns(3pm) Configuration class Dpkg::Copyright::ScanPatterns.
Config::Model::models::Dpkg::Copyright::ScanPatterns::Lists(3pm) Configuration class.
Config::Model::models::Dpkg::Install(3pm) Configuration class Dpkg::Install.
Config::Model::models::Dpkg::Meta(3pm) Configuration class Dpkg::Meta.
Config::Model::models::Dpkg::PackageScripts(3pm) Configuration class Dpkg::PackageScripts.
Config::Model::models::Dpkg::Patch(3pm) Configuration class Dpkg::Patch.
Config::Model::models::Dpkg::Patches(3pm) Configuration class Dpkg::Patches.
Config::Model::models::Dpkg::Source(3pm) Configuration class Dpkg::Source.
Config::Model::models::Dpkg::Source::Options(3pm) Configuration class Dpkg::Source::Options.
Config::Model::models::Dpkg::Tests(3pm) Configuration class Dpkg::Tests.
Config::Model::models::Dpkg::Tests::Control(3pm) Configuration class Dpkg::Tests::Control.
Config::Model::models::Fstab(3pm) Configuration class Fstab.
Config::Model::models::Fstab::FsLine(3pm) Configuration class Fstab::FsLine.
Config::Model::models::Itself::Class(3pm) Configuration class Itself::Class.
Config::Model::models::Itself::CommonElement::Assert(3pm) Configuration class Itself::CommonElement::Assert.
Config::Model::models::Itself::CommonElement::WarnIfMatch(3pm) Configuration class.
Config::Model::models::Itself::ConfigAccept(3pm) Configuration class Itself::ConfigAccept.
Config::Model::models::Itself::ConfigRead(3pm) Configuration class Itself::ConfigRead.
Config::Model::models::Itself::ConfigReadWrite::DefaultLayer(3pm) Configuration class.
Config::Model::models::Itself::ConfigWrite(3pm) Configuration class Itself::ConfigWrite.
Config::Model::models::Itself::Element(3pm) Configuration class Itself::Element.
Config::Model::models::Itself::WarpValue(3pm) Configuration class Itself::WarpValue.
Config::Model::models::LCDd(3pm) Configuration class LCDd.
Config::Model::models::LCDd::bayrad(3pm) Configuration class LCDd::bayrad.
Config::Model::models::LCDd::CFontz(3pm) Configuration class LCDd::CFontz.
Config::Model::models::LCDd::CFontzPacket(3pm) Configuration class LCDd::CFontzPacket.
Config::Model::models::LCDd::curses(3pm) Configuration class LCDd::curses.
Config::Model::models::LCDd::CwLnx(3pm) Configuration class LCDd::CwLnx.
Config::Model::models::LCDd::ea65(3pm) Configuration class LCDd::ea65.
Config::Model::models::LCDd::EyeboxOne(3pm) Configuration class LCDd::EyeboxOne.
Config::Model::models::LCDd::futaba(3pm) Configuration class LCDd::futaba.
Config::Model::models::LCDd::g15(3pm) Configuration class LCDd::g15.
Config::Model::models::LCDd::glcd(3pm) Configuration class LCDd::glcd.
Config::Model::models::LCDd::glcdlib(3pm) Configuration class LCDd::glcdlib.
Config::Model::models::LCDd::glk(3pm) Configuration class LCDd::glk.
Config::Model::models::LCDd::hd44780(3pm) Configuration class LCDd::hd44780.
Config::Model::models::LCDd::icp_a106(3pm) Configuration class LCDd::icp_a106.
Config::Model::models::LCDd::imon(3pm) Configuration class LCDd::imon.
Config::Model::models::LCDd::imonlcd(3pm) Configuration class LCDd::imonlcd.
Config::Model::models::LCDd::IOWarrior(3pm) Configuration class LCDd::IOWarrior.
Config::Model::models::LCDd::IrMan(3pm) Configuration class LCDd::IrMan.
Config::Model::models::LCDd::irtrans(3pm) Configuration class LCDd::irtrans.
Config::Model::models::LCDd::joy(3pm) Configuration class LCDd::joy.
Config::Model::models::LCDd::lb216(3pm) Configuration class LCDd::lb216.
Config::Model::models::LCDd::lcdm001(3pm) Configuration class LCDd::lcdm001.
Config::Model::models::LCDd::lcterm(3pm) Configuration class LCDd::lcterm.
Config::Model::models::LCDd::linux_input(3pm) Configuration class LCDd::linux_input.
Config::Model::models::LCDd::lirc(3pm) Configuration class LCDd::lirc.
Config::Model::models::LCDd::lis(3pm) Configuration class LCDd::lis.
Config::Model::models::LCDd::MD8800(3pm) Configuration class LCDd::MD8800.
Config::Model::models::LCDd::mdm166a(3pm) Configuration class LCDd::mdm166a.
Config::Model::models::LCDd::menu(3pm) Configuration class LCDd::menu.
Config::Model::models::LCDd::ms6931(3pm) Configuration class LCDd::ms6931.
Config::Model::models::LCDd::mtc_s16209x(3pm) Configuration class LCDd::mtc_s16209x.
Config::Model::models::LCDd::MtxOrb(3pm) Configuration class LCDd::MtxOrb.
Config::Model::models::LCDd::mx5000(3pm) Configuration class LCDd::mx5000.
Config::Model::models::LCDd::NoritakeVFD(3pm) Configuration class LCDd::NoritakeVFD.
Config::Model::models::LCDd::Olimex_MOD_LCD1x9(3pm) Configuration class LCDd::Olimex_MOD_LCD1x9.
Config::Model::models::LCDd::picolcd(3pm) Configuration class LCDd::picolcd.
Config::Model::models::LCDd::pyramid(3pm) Configuration class LCDd::pyramid.
Config::Model::models::LCDd::rawserial(3pm) Configuration class LCDd::rawserial.
Config::Model::models::LCDd::sdeclcd(3pm) Configuration class LCDd::sdeclcd.
Config::Model::models::LCDd::sed1330(3pm) Configuration class LCDd::sed1330.
Config::Model::models::LCDd::sed1520(3pm) Configuration class LCDd::sed1520.
Config::Model::models::LCDd::serialPOS(3pm) Configuration class LCDd::serialPOS.
Config::Model::models::LCDd::serialVFD(3pm) Configuration class LCDd::serialVFD.
Config::Model::models::LCDd::server(3pm) Configuration class LCDd::server.
Config::Model::models::LCDd::shuttleVFD(3pm) Configuration class LCDd::shuttleVFD.
Config::Model::models::LCDd::sli(3pm) Configuration class LCDd::sli.
Config::Model::models::LCDd::stv5730(3pm) Configuration class LCDd::stv5730.
Config::Model::models::LCDd::SureElec(3pm) Configuration class LCDd::SureElec.
Config::Model::models::LCDd::svga(3pm) Configuration class LCDd::svga.
Config::Model::models::LCDd::t6963(3pm) Configuration class LCDd::t6963.
Config::Model::models::LCDd::text(3pm) Configuration class LCDd::text.
Config::Model::models::LCDd::tyan(3pm) Configuration class LCDd::tyan.
Config::Model::models::LCDd::ula200(3pm) Configuration class LCDd::ula200.
Config::Model::models::LCDd::vlsys_m428(3pm) Configuration class LCDd::vlsys_m428.
Config::Model::models::LCDd::xosd(3pm) Configuration class LCDd::xosd.
Config::Model::models::LCDd::yard2LCD(3pm) Configuration class LCDd::yard2LCD.
Config::Model::models::Multistrap(3pm) Configuration class Multistrap.
Config::Model::models::Multistrap::Section(3pm) Configuration class Multistrap::Section.
Config::Model::models::PopCon(3pm) Configuration class PopCon.
Config::Model::models::Ssh(3pm) Configuration class Ssh.
Config::Model::models::Ssh::HostElement(3pm) Configuration class Ssh::HostElement.
Config::Model::models::Ssh::PortForward(3pm) Configuration class Ssh::PortForward.
Config::Model::models::Sshd(3pm) Configuration class Sshd.
Config::Model::models::Sshd::MatchBlock(3pm) Configuration class Sshd::MatchBlock.
Config::Model::models::Sshd::MatchCondition(3pm) Configuration class Sshd::MatchCondition.
Config::Model::models::Sshd::MatchElement(3pm) Configuration class Sshd::MatchElement.
Config::Model::models::Systemd(3pm) Configuration class Systemd.
Config::Model::models::Systemd::Section::Install(3pm) Configuration class Systemd::Section::Install.
Config::Model::models::Systemd::Section::Service(3pm) Configuration class Systemd::Section::Service.
Config::Model::models::Systemd::Section::Socket(3pm) Configuration class Systemd::Section::Socket.
Config::Model::models::Systemd::Section::Timer(3pm) Configuration class Systemd::Section::Timer.
Config::Model::models::Systemd::Section::Unit(3pm) Configuration class Systemd::Section::Unit.
Config::Model::models::Systemd::Service(3pm) Configuration class Systemd::Service.
Config::Model::models::Systemd::Socket(3pm) Configuration class Systemd::Socket.
Config::Model::models::Systemd::Timer(3pm) Configuration class Systemd::Timer.
Config::Model::models::SystemSsh(3pm) Configuration class SystemSsh.
Config::Model::Node(3pm) Class for configuration tree node.
Config::Model::ObjTreeScanner(3pm) Scan config tree and perform call-backs for each element or node.
Config::Model::OpenSsh(3pm) OpenSSH config editor.
Config::Model::Report(3pm) Reports data from config tree.
Config::Model::Role::ComputeFunction(3pm) Compute &index or &element functions.
Config::Model::Role::FileHandler(3pm) Role to read or write configuration files.
Config::Model::Role::Grab(3pm) Role to grab data from elsewhere in the tree.
Config::Model::Role::HelpAsText(3pm) Translate element help from pod to text.
Config::Model::Role::NodeLoader(3pm) Load Node element in configuration tree.
Config::Model::Role::WarpMaster(3pm) Register and trigger a warped element.
Config::Model::SearchElement(3pm) Search an element in a configuration model.
Config::Model::SimpleUI(3pm) Simple interface for Config::Model.
Config::Model::Systemd(3pm) Editor and validator for systemd configuration files.
Config::Model::TermUI(3pm) Interactive command line interface for cme.
Config::Model::Tester(3pm) Test framework for Config::Model.
Config::Model::TkUI(3pm) Tk GUI to edit config data through Config::Model.
Config::Model::TreeSearcher(3pm) Search tree for match in value, description...
Config::Model::Utils::GenClassPod(3pm) Generate pod documentation from configuration models.
Config::Model::Value(3pm) Strongly typed configuration value.
Config::Model::Value::LayeredInclude(3pm) Include a sub layer configuration.
Config::Model::ValueComputer(3pm) Provides configuration value computation.
Config::Model::WarpedNode(3pm) Node that change config class properties.
Config::Model::Warper(3pm) Warp tree properties.
Config::Perl::V(3perl) Structured data retrieval of perl -V output.
Config::Std(3pm) Load and save configuration files in a standard format.
Config::ZOMG(3pm) Yet Another Catalyst::Plugin::ConfigLoader-style layer over Config::Any.
Config::ZOMG::Source::Loader(3pm)
constant(3perl) Perl pragma to declare constants.
Context::Preserve(3pm) Run code after a subroutine call, preserving the context the subroutine would have seen if.
Convert::BaseN(3pm) Encoding and decoding of base{2,4,8,16,32,64} strings.
Convert::UUlib(3pm) Perl interface to the uulib library (a.k.a. uudeview/uuenview).
convertConfig(1p) Tool used to change Lemonldap::NG configuration database.
convmv(1) Converts filenames from one encoding to another.
Cookie::Baker(3pm) Cookie string generator / parser.
CORE(3perl) Namespace for Perl's core routines.
corelist(1) A commandline frontend to Module::CoreList.
corelist(1p) A commandline frontend to Module::CoreList.
Coro(3pm) The only real threads in perl.
Coro::AIO(3pm) Truly asynchronous file and directory I/O.
Coro::AnyEvent(3pm) Integrate threads into AnyEvent.
Coro::BDB(3pm) Truly asynchronous bdb access.
Coro::Channel(3pm) Message queues.
Coro::Debug(3pm) Various functions that help debugging Coro programs.
Coro::EV(3pm) Do events the coro-way, with EV.
Coro::Event(3pm) Do events the coro-way, with Event.
Coro::Handle(3pm) Non-blocking I/O with a blocking interface.
Coro::Intro(3pm) An introduction to Coro.
Coro::LWP(3pm) Make LWP non-blocking - as much as possible.
Coro::MakeMaker(3pm) MakeMaker glue for the XS-level Coro API.
Coro::RWLock(3pm) Reader/write locks.
Coro::Select(3pm) A (slow but coro-aware) replacement for CORE::select.
Coro::Semaphore(3pm) Counting semaphores.
Coro::SemaphoreSet(3pm) Efficient set of counting semaphores.
Coro::Signal(3pm) Thread signals (binary semaphores).
Coro::Socket(3pm) Non-blocking socket-I/O.
Coro::Specific(3pm) Manage coroutine-specific variables.
Coro::State(3pm) First class continuations.
Coro::Storable(3pm) Offer a more fine-grained Storable interface.
Coro::Timer(3pm) Timers and timeouts, independent of any event loop.
Coro::Util(3pm) Various utility functions.
Courriel(3pm) High level email parsing and manipulation.
Courriel::Builder(3pm) Build emails with sugar.
Courriel::Header(3pm) A single header's name and value.
Courriel::Header::ContentType(3pm) The content type for an email part.
Courriel::Header::Disposition(3pm) The content disposition for an email part.
Courriel::HeaderAttribute(3pm) A single attribute belonging to a header.
Courriel::Headers(3pm) The headers for an email part.
Courriel::Part::Multipart(3pm) A part which contains other parts.
Courriel::Part::Single(3pm) A part which does not contain other parts, only content.
cover(1p) Report coverage statistics.
Coy(3pm) Like Carp only prettier.
cpan(1) Easily interact with CPAN from the command line.
CPAN(3perl) Query, download and build perl modules from CPAN sites.
cpan2deb(1p) ↣ dh-make-perl(1p) Create debian source packages from Perl modules.
cpan2dist(1p) The CPANPLUS distribution creator.
cpan2dsc(1p) ↣ dh-make-perl(1p) Create debian source packages from Perl modules.
cpan5.26-i386-linux-gnu(1) Easily interact with CPAN from the command line.
CPAN::API::HOWTO(3perl) A recipe book for programming with CPAN.pm.
CPAN::Debug(3perl) Internal debugging for CPAN.pm.
CPAN::Distroprefs(3perl)
CPAN::FirstTime(3perl) Utility for CPAN::Config file Initialization.
CPAN::HandleConfig(3perl) Internal configuration handling for CPAN.pm.
CPAN::Kwalify(3perl) Interface between CPAN.pm and Kwalify.pm.
CPAN::Meta(3perl) The distribution metadata for a CPAN dist.
CPAN::Meta::Converter(3perl) Convert CPAN distribution metadata structures.
CPAN::Meta::Feature(3perl) An optional feature provided by a CPAN distribution.
CPAN::Meta::History(3perl) History of CPAN Meta Spec changes.
CPAN::Meta::History::Meta_1_0(3perl) Version 1.0 metadata specification for META.yml.
CPAN::Meta::History::Meta_1_1(3perl) Version 1.1 metadata specification for META.yml.
CPAN::Meta::History::Meta_1_2(3perl) Version 1.2 metadata specification for META.yml.
CPAN::Meta::History::Meta_1_3(3perl) Version 1.3 metadata specification for META.yml.
CPAN::Meta::History::Meta_1_4(3perl) Version 1.4 metadata specification for META.yml.
CPAN::Meta::Merge(3perl) Merging CPAN Meta fragments.
CPAN::Meta::Prereqs(3perl) A set of distribution prerequisites by phase and type.
CPAN::Meta::Requirements(3perl) A set of version requirements for a CPAN dist.
CPAN::Meta::Spec(3perl) Specification for CPAN distribution metadata.
CPAN::Meta::Validator(3perl) Validate CPAN distribution metadata structures.
CPAN::Meta::YAML(3perl) Read and write a subset of YAML for CPAN Meta files.
CPAN::Mini::Inject(3pm) Inject modules into a CPAN::Mini mirror.
CPAN::Mini::Inject::Config(3pm) Config for CPAN::Mini::Inject.
CPAN::Mirrors(3perl) Get CPAN mirror information and select a fast one.
CPAN::Nox(3perl) Wrapper around CPAN.pm without using any XS module.
CPAN::Perl::Releases(3pm) Mapping Perl releases on CPAN to the location of the tarballs.
CPAN::Plugin(3perl) Base class for CPAN shell extensions.
CPAN::Plugin::Specfile(3perl) Proof of concept implementation of a trivial CPAN::Plugin.
CPAN::Queue(3perl) Internal queue support for CPAN.pm.
CPAN::Reporter::Smoker(3pm) Turnkey CPAN Testers smoking.
CPAN::Tarzip(3perl) Internal handling of tar archives for CPAN.pm.
CPAN::Version(3perl) Utility functions to compare CPAN versions.
cpancover(1p) Report coverage statistics on CPAN modules.
Cpanel::JSON::XS(3pm) CPanel fork of JSON::XS, fast and correct serializing.
Cpanel::JSON::XS::Boolean(3pm) Dummy module providing JSON::XS::Boolean.
cpanel_json_xs(1p) Cpanel::JSON::XS commandline utility.
cpanm(1p) Get, unpack build and install modules from CPAN.
cpanp(1p) The CPANPLUS launcher.
CPANPLUS(3pm) API & CLI access to the CPAN mirrors.
CPANPLUS::Backend(3pm) Programmer's interface to CPANPLUS.
CPANPLUS::Backend::RV(3pm) Return value objects.
CPANPLUS::Config(3pm) Configuration defaults and heuristics for CPANPLUS.
CPANPLUS::Config::HomeEnv(3pm) Set the environment for the CPANPLUS base dir.
CPANPLUS::Config::System(3pm) CPANPLUS configuration file for Debian systems.
CPANPLUS::Configure(3pm) Configuration for CPANPLUS.
CPANPLUS::Dist(3pm) Base class for plugins.
CPANPLUS::Dist::Autobundle(3pm) Distribution class for installation snapshots.
CPANPLUS::Dist::Base(3pm) Base class for custom distribution classes.
CPANPLUS::Dist::Build(3pm) CPANPLUS plugin to install packages that use Build.PL.
CPANPLUS::Dist::Build::Constants(3pm) Constants for CPANPLUS::Dist::Build.
CPANPLUS::Dist::MM(3pm) Distribution class for MakeMaker related modules.
CPANPLUS::Dist::Sample(3pm)
CPANPLUS::Error(3pm) Error handling for CPANPLUS.
CPANPLUS::FAQ(3pm) CPANPLUS Frequently Asked Questions.
CPANPLUS::Hacking(3pm) Developing CPANPLUS.
CPANPLUS::Internals(3pm) CPANPLUS internals.
CPANPLUS::Internals::Extract(3pm) Internals for archive extraction.
CPANPLUS::Internals::Fetch(3pm) Internals for fetching files.
CPANPLUS::Internals::Report(3pm) Internals for sending test reports.
CPANPLUS::Internals::Search(3pm) Internals for searching for modules.
CPANPLUS::Internals::Source(3pm) Internals for updating source files.
CPANPLUS::Internals::Source::Memory(3pm) In memory implementation.
CPANPLUS::Internals::Source::SQLite(3pm) SQLite implementation.
CPANPLUS::Internals::Utils(3pm) Convenience functions for CPANPLUS.
CPANPLUS::Module(3pm) CPAN module objects for CPANPLUS.
CPANPLUS::Module::Author(3pm) CPAN author object for CPANPLUS.
CPANPLUS::Module::Author::Fake(3pm) Dummy author object for CPANPLUS.
CPANPLUS::Module::Checksums(3pm) Checking the checksum of a distribution.
CPANPLUS::Module::Fake(3pm) Fake module object for internal use.
CPANPLUS::Selfupdate(3pm) Self-updating for CPANPLUS.
CPANPLUS::Shell(3pm) Base class for CPANPLUS shells.
CPANPLUS::Shell::Classic(3pm) CPAN.pm emulation for CPANPLUS.
CPANPLUS::Shell::Default(3pm) The default CPANPLUS shell.
CPANPLUS::Shell::Default::Plugins::CustomSource(3pm) Add custom sources to CPANPLUS.
CPANPLUS::Shell::Default::Plugins::HOWTO(3pm)
CPANPLUS::Shell::Default::Plugins::Remote(3pm) Connect to a remote CPANPLUS.
CPANPLUS::Shell::Default::Plugins::Source(3pm) Read in CPANPLUS commands.
create_pan_genome(1p) Create a pan genome from a set of GFF files with WTSI defaults.
create_pan_genome_plots(1p) Create R plots.
crsh(1p) Cluster administration tool.
Crypt::AuthEnc(3pm) [internal only].
Crypt::AuthEnc::CCM(3pm) Authenticated encryption in CCM mode.
Crypt::AuthEnc::ChaCha20Poly1305(3pm) Authenticated encryption in ChaCha20-Poly1305 mode.
Crypt::AuthEnc::EAX(3pm) Authenticated encryption in EAX mode.
Crypt::AuthEnc::GCM(3pm) Authenticated encryption in GCM mode.
Crypt::AuthEnc::OCB(3pm) Authenticated encryption in OCBv3 mode.
Crypt::CAST5(3pm) CAST5 block cipher.
Crypt::Checksum(3pm) Functional interface to CRC32 and Adler32 checksums.
Crypt::Checksum::Adler32(3pm) Compute Adler32 checksum.
Crypt::Checksum::CRC32(3pm) Compute CRC32 checksum.
Crypt::Cipher(3pm) Generic interface to cipher functions.
Crypt::Cipher::AES(3pm) Symmetric cipher AES (aka Rijndael), key size: 128/192/256 bits (Crypt::CBC compliant).
Crypt::Cipher::Anubis(3pm) Symmetric cipher Anubis, key size: 128-320 bits (Crypt::CBC compliant).
Crypt::Cipher::Blowfish(3pm) Symmetric cipher Blowfish, key size: 64-448 bits (Crypt::CBC compliant).
Crypt::Cipher::Camellia(3pm) Symmetric cipher Camellia, key size: 128/192/256 bits (Crypt::CBC compliant).
Crypt::Cipher::CAST5(3pm) Symmetric cipher CAST5 (aka CAST-128), key size: 40-128 bits (Crypt::CBC compliant).
Crypt::Cipher::DES(3pm) Symmetric cipher DES, key size: 64[56] bits (Crypt::CBC compliant).
Crypt::Cipher::DES_EDE(3pm) Symmetric cipher DES_EDE (aka Triple-DES, 3DES), key size: 192[168] bits (Crypt::CBC.
Crypt::Cipher::IDEA(3pm) Symmetric cipher IDEA, key size: 128 bits (Crypt::CBC compliant).
Crypt::Cipher::KASUMI(3pm) Symmetric cipher KASUMI, key size: 128 bits (Crypt::CBC compliant).
Crypt::Cipher::Khazad(3pm) Symmetric cipher Khazad, key size: 128 bits (Crypt::CBC compliant).
Crypt::Cipher::MULTI2(3pm) Symmetric cipher MULTI2, key size: 320 bits (Crypt::CBC compliant).
Crypt::Cipher::Noekeon(3pm) Symmetric cipher Noekeon, key size: 128 bits (Crypt::CBC compliant).
Crypt::Cipher::RC2(3pm) Symmetric cipher RC2, key size: 40-1024 bits (Crypt::CBC compliant).
Crypt::Cipher::RC5(3pm) Symmetric cipher RC5, key size: 64-1024 bits (Crypt::CBC compliant).
Crypt::Cipher::RC6(3pm) Symmetric cipher RC6, key size: 64-1024 bits (Crypt::CBC compliant).
Crypt::Cipher::SAFER_K128(3pm) Symmetric cipher SAFER_K128, key size: 128 bits (Crypt::CBC compliant).
Crypt::Cipher::SAFER_K64(3pm) Symmetric cipher SAFER_K64, key size: 64 bits (Crypt::CBC compliant).
Crypt::Cipher::SAFER_SK128(3pm) Symmetric cipher SAFER_SK128, key size: 128 bits (Crypt::CBC compliant).
Crypt::Cipher::SAFER_SK64(3pm) Symmetric cipher SAFER_SK64, key size: 64 bits (Crypt::CBC compliant).
Crypt::Cipher::SAFERP(3pm) Symmetric cipher SAFER+, key size: 128/192/256 bits (Crypt::CBC compliant).
Crypt::Cipher::SEED(3pm) Symmetric cipher SEED, key size: 128 bits (Crypt::CBC compliant).
Crypt::Cipher::Serpent(3pm) Symmetric cipher Serpent, key size: 128/192/256 bits (Crypt::CBC compliant).
Crypt::Cipher::Skipjack(3pm) Symmetric cipher Skipjack, key size: 80 bits (Crypt::CBC compliant).
Crypt::Cipher::Twofish(3pm) Symmetric cipher Twofish, key size: 128/192/256 bits (Crypt::CBC compliant).
Crypt::Cipher::XTEA(3pm) Symmetric cipher XTEA, key size: 128 bits (Crypt::CBC compliant).
Crypt::Digest(3pm) Generic interface to hash/digest functions.
Crypt::Digest::BLAKE2b_160(3pm) Hash function BLAKE2b [size: 160 bits].
Crypt::Digest::BLAKE2b_256(3pm) Hash function BLAKE2b [size: 256 bits].
Crypt::Digest::BLAKE2b_384(3pm) Hash function BLAKE2b [size: 384 bits].
Crypt::Digest::BLAKE2b_512(3pm) Hash function BLAKE2b [size: 512 bits].
Crypt::Digest::BLAKE2s_128(3pm) Hash function BLAKE2s [size: 128 bits].
Crypt::Digest::BLAKE2s_160(3pm) Hash function BLAKE2s [size: 160 bits].
Crypt::Digest::BLAKE2s_224(3pm) Hash function BLAKE2s [size: 224 bits].
Crypt::Digest::BLAKE2s_256(3pm) Hash function BLAKE2s [size: 256 bits].
Crypt::Digest::CHAES(3pm) Hash function - CipherHash based on AES [size: 128 bits].
Crypt::Digest::MD2(3pm) Hash function MD2 [size: 128 bits].
Crypt::Digest::MD4(3pm) Hash function MD4 [size: 128 bits].
Crypt::Digest::MD5(3pm) Hash function MD5 [size: 128 bits].
Crypt::Digest::RIPEMD128(3pm) Hash function RIPEMD-128 [size: 128 bits].
Crypt::Digest::RIPEMD160(3pm) Hash function RIPEMD-160 [size: 160 bits].
Crypt::Digest::RIPEMD256(3pm) Hash function RIPEMD-256 [size: 256 bits].
Crypt::Digest::RIPEMD320(3pm) Hash function RIPEMD-320 [size: 320 bits].
Crypt::Digest::SHA1(3pm) Hash function SHA-1 [size: 160 bits].
Crypt::Digest::SHA224(3pm) Hash function SHA-224 [size: 224 bits].
Crypt::Digest::SHA256(3pm) Hash function SHA-256 [size: 256 bits].
Crypt::Digest::SHA384(3pm) Hash function SHA-384 [size: 384 bits].
Crypt::Digest::SHA3_224(3pm) Hash function SHA3-224 [size: 224 bits].
Crypt::Digest::SHA3_256(3pm) Hash function SHA3-256 [size: 256 bits].
Crypt::Digest::SHA3_384(3pm) Hash function SHA3-384 [size: 384 bits].
Crypt::Digest::SHA3_512(3pm) Hash function SHA3-512 [size: 512 bits].
Crypt::Digest::SHA512(3pm) Hash function SHA-512 [size: 512 bits].
Crypt::Digest::SHA512_224(3pm) Hash function SHA-512/224 [size: 224 bits].
Crypt::Digest::SHA512_256(3pm) Hash function SHA-512/256 [size: 256 bits].
Crypt::Digest::SHAKE(3pm) Hash functions SHAKE128, SHAKE256 from SHA3 family.
Crypt::Digest::Tiger192(3pm) Hash function Tiger-192 [size: 192 bits].
Crypt::Digest::Whirlpool(3pm) Hash function Whirlpool [size: 512 bits].
Crypt::KeyDerivation(3pm) PBKDF1, PBKDF2 and HKDF key derivation functions.
Crypt::Mac(3pm) [internal only].
Crypt::Mac::BLAKE2b(3pm) Message authentication code BLAKE2b MAC (RFC 7693).
Crypt::Mac::BLAKE2s(3pm) Message authentication code BLAKE2s MAC (RFC 7693).
Crypt::Mac::F9(3pm) Message authentication code F9.
Crypt::Mac::HMAC(3pm) Message authentication code HMAC.
Crypt::Mac::OMAC(3pm) Message authentication code OMAC.
Crypt::Mac::Pelican(3pm) Message authentication code Pelican (AES based MAC).
Crypt::Mac::PMAC(3pm) Message authentication code PMAC.
Crypt::Mac::Poly1305(3pm) Message authentication code Poly1305 (RFC 7539).
Crypt::Mac::XCBC(3pm) Message authentication code XCBC (RFC 3566).
Crypt::Misc(3pm) Miscellaneous functions related to (or used by) CryptX.
Crypt::Mode(3pm) [internal only].
Crypt::Mode::CBC(3pm) Block cipher mode CBC [Cipher-block chaining].
Crypt::Mode::CFB(3pm) Block cipher mode CFB [Cipher feedback].
Crypt::Mode::CTR(3pm) Block cipher mode CTR [Counter mode].
Crypt::Mode::ECB(3pm) Block cipher mode ECB [Electronic codebook].
Crypt::Mode::OFB(3pm) Block cipher mode OFB [Output feedback].
Crypt::OpenSSL::Bignum(3pm) OpenSSL's multiprecision integer arithmetic.
Crypt::OpenSSL::Bignum::CTX(3pm) Perl interface to the OpenSSL BN_CTX structure.
Crypt::OpenSSL::DSA(3pm) Digital Signature Algorithm using OpenSSL.
Crypt::OpenSSL::DSA::Signature(3pm) Digital Signature Object.
Crypt::OpenSSL::EC(3pm) Perl extension for OpenSSL EC (Elliptic Curves) library.
Crypt::OpenSSL::PKCS10(3pm) Perl extension to OpenSSL's PKCS10 API.
Crypt::OpenSSL::PKCS12(3pm) Perl extension to OpenSSL's PKCS12 API.
Crypt::OpenSSL::Random(3pm) OpenSSL/LibreSSL pseudo-random number generator access.
Crypt::OpenSSL::RSA(3pm) RSA encoding and decoding, using the openSSL libraries.
Crypt::OpenSSL::X509(3pm) Perl extension to OpenSSL's X509 API.
Crypt::PK(3pm) [internal only].
Crypt::PK::DH(3pm) Public key cryptography based on Diffie-Hellman.
Crypt::PK::DSA(3pm) Public key cryptography based on DSA.
Crypt::PK::ECC(3pm) Public key cryptography based on EC.
Crypt::PK::RSA(3pm) Public key cryptography based on RSA.
Crypt::PRNG(3pm) Cryptographically secure random number generator.
Crypt::PRNG::ChaCha20(3pm) Cryptographically secure PRNG based on ChaCha20 (stream cipher) algorithm.
Crypt::PRNG::Fortuna(3pm) Cryptographically secure PRNG based on Fortuna algorithm.
Crypt::PRNG::RC4(3pm) Cryptographically secure PRNG based on RC4 (stream cipher) algorithm.
Crypt::PRNG::Sober128(3pm) Cryptographically secure PRNG based on Sober128 (stream cipher) algorithm.
Crypt::PRNG::Yarrow(3pm) Cryptographically secure PRNG based on Yarrow algorithm.
Crypt::Random::Source(3pm) Get weak or strong random data from pluggable sources.
Crypt::Random::Source::Base(3pm) Abstract base class for Crypt::Random::Source classes.
Crypt::Random::Source::Base::File(3pm) File (or device) random data sources.
Crypt::Random::Source::Base::Handle(3pm) IO::Handle based random data sources.
Crypt::Random::Source::Base::Proc(3pm) Base class for helper processes (e.g. "openssl").
Crypt::Random::Source::Base::RandomDevice(3pm) Base class for random devices.
Crypt::Random::Source::Factory(3pm) Load and instantiate sources of random data.
Crypt::Random::Source::Strong(3pm) Abstract base class for strong random data sources.
Crypt::Random::Source::Strong::devrandom(3pm) A strong random data source using /dev/random.
Crypt::Random::Source::Weak(3pm) Abstract base class for weak random data sources.
Crypt::Random::Source::Weak::devurandom(3pm) A weak random data source using /dev/urandom.
Crypt::Random::Source::Weak::rand(3pm) Use "rand" to create random bytes.
Crypt::RC4(3pm) Perl implementation of the RC4 encryption algorithm.
Crypt::SSLeay(3pm) OpenSSL support for LWP.
Crypt::SSLeay::Version(3pm) Obtain OpenSSL version information.
Crypt::Stream::ChaCha(3pm) Stream cipher ChaCha.
Crypt::Stream::Rabbit(3pm) Stream cipher Rabbit.
Crypt::Stream::RC4(3pm) Stream cipher RC4.
Crypt::Stream::Salsa20(3pm) Stream cipher Salsa20.
Crypt::Stream::Sober128(3pm) Stream cipher Sober128.
Crypt::Stream::Sosemanuk(3pm) Stream cipher Sosemanuk.
Crypt::Twofish(3pm) The Twofish Encryption Algorithm.
Crypt::U2F::Server(3pm) Low level wrapper around the U2F two factor authentication C library (server side).
Crypt::U2F::Server::Simple(3pm) Register and Authenticate U2F compatible security devices.
Crypt::UnixCrypt(3pm) Perl-only implementation of the "crypt" function.
CryptX(3pm) Cryptographic toolkit (self-contained, no external libraries needed).
csftp(1p) Cluster administration tool.
CSS::DOM(3pm) Document Object Model for Cascading Style Sheets.
CSS::DOM::Array(3pm) Array class for CSS::DOM.
CSS::DOM::Constants(3pm) Constants for CSS::DOM.
CSS::DOM::Exception(3pm) The Exception interface for CSS::DOM.
CSS::DOM::Interface(3pm) A list of CSS::DOM's interface members in machine-readable format.
CSS::DOM::MediaList(3pm) Medium list class for CSS::DOM.
CSS::DOM::Parser(3pm) Parser for CSS::DOM.
CSS::DOM::PropertyParser(3pm) Parser for CSS property values.
CSS::DOM::Rule(3pm) CSS rule class for CSS::DOM.
CSS::DOM::Rule::Charset(3pm) CSS @font-face rule class for CSS::DOM.
CSS::DOM::Rule::FontFace(3pm) CSS @font-face rule class for CSS::DOM.
CSS::DOM::Rule::Import(3pm) CSS @import rule class for CSS::DOM.
CSS::DOM::Rule::Media(3pm) CSS @media rule class for CSS::DOM.
CSS::DOM::Rule::Page(3pm) CSS @page rule class for CSS::DOM.
CSS::DOM::Rule::Style(3pm) CSS style rule class for CSS::DOM.
CSS::DOM::RuleList(3pm) Rule list class for CSS::DOM.
CSS::DOM::Style(3pm) CSS style declaration class for CSS::DOM.
CSS::DOM::StyleSheetList(3pm) Style sheet list class for CSS::DOM.
CSS::DOM::Util(3pm) Utility functions for dealing with CSS tokens.
CSS::DOM::Value(3pm) CSSValue class for CSS::DOM.
CSS::DOM::Value::List(3pm) CSSValueList class for CSS::DOM.
CSS::DOM::Value::Primitive(3pm) CSSPrimitiveValue class for CSS::DOM.
CSS::Packer(3pm) Another CSS minifier.
CSS::Squish(3pm) Compact many CSS files into one big file.
cssh(1p) Cluster administration tool.
csv2mipe(1) Generates MIPE file based on 3 tab-delimited files.
ctel(1p) Cluster administration tool.
cupt(1) Console package management tool.
cupt.conf(5) Configuration file for Cupt.
cupt_vs_apt(5) Overview of things Cupt and APT differ in.
curry(3pm) Create automatic curried method call closures for any class or object.
Cwd(3perl) Get pathname of current working directory.
cyradm(1p) Cyrus administration shell, alter ego of Cyrus::IMAP::Shell.
cyrus-sieveshell(1) Remotely manipulate sieve scripts.
Cyrus::Annotator::Daemon(3pm) Framework for writing annotator daemons for Cyrus.
Cyrus::Annotator::Message(3pm) Representation of a message to annotate.
Cyrus::IMAP(3pm) Interface to Cyrus imclient library.
Cyrus::IMAP::Admin(3pm) Cyrus administrative interface Perl module.
Cyrus::IMAP::IMSP(3pm) Perl module for Cyrus IMSP user options.
Cyrus::IMAP::Shell(3pm) Perl version of cyradm.
Cyrus::SIEVE::managesieve(3pm) Perl client for the SIEVE protocol.
daemon(1) Turns other processes into daemons.
dahdi_genconf(8) Generate configuration for Dahdi channels.
dahdi_hardware(8) Shows Dahdi hardware devices.
dahdi_registration(8) Handle registration of Xorcom XPD modules in dahdi.
dancer2(1p) Dancer2 command line interface.
Dancer2(3pm) Lightweight yet powerful web application framework.
Dancer2::CLI(3pm) Dancer2 cli application.
Dancer2::CLI::Command::gen(3pm) Create new Dancer2 application.
Dancer2::CLI::Command::version(3pm) Display version.
Dancer2::Config(3pm) Configure Dancer2 to suit your needs.
Dancer2::Cookbook(3pm) Example-driven quick-start to the Dancer2 web framework.
Dancer2::Core(3pm) Core libraries for Dancer2 2.0.
Dancer2::Core::App(3pm) Encapsulation of Dancer2 packages.
Dancer2::Core::Cookie(3pm) A cookie representing class.
Dancer2::Core::Dispatcher(3pm) Class for dispatching request to the appropriate route handler.
Dancer2::Core::DSL(3pm) Dancer2's Domain Specific Language (DSL).
Dancer2::Core::Error(3pm) Class representing fatal errors.
Dancer2::Core::Factory(3pm) Instantiate components by type and name.
Dancer2::Core::Hook(3pm) Manipulate hooks with Dancer2.
Dancer2::Core::HTTP(3pm) Helper for rendering HTTP status codes for Dancer2.
Dancer2::Core::MIME(3pm) Class to ease manipulation of MIME types.
Dancer2::Core::Request(3pm) Interface for accessing incoming requests.
Dancer2::Core::Request::Upload(3pm) Class representing file upload requests.
Dancer2::Core::Response(3pm) Response object for Dancer2.
Dancer2::Core::Response::Delayed(3pm) Delayed responses.
Dancer2::Core::Role::ConfigReader(3pm) Config role for Dancer2 core objects.
Dancer2::Core::Role::DSL(3pm) Role for DSL.
Dancer2::Core::Role::Engine(3pm) Role for engines.
Dancer2::Core::Role::Handler(3pm) Role for Handlers.
Dancer2::Core::Role::HasLocation(3pm) Role for application location "guessing".
Dancer2::Core::Role::Hookable(3pm) Role for hookable objects.
Dancer2::Core::Role::Logger(3pm) Role for logger engines.
Dancer2::Core::Role::Serializer(3pm) Role for Serializer engines.
Dancer2::Core::Role::SessionFactory(3pm) Role for session factories.
Dancer2::Core::Role::SessionFactory::File(3pm) Role for file-based session factories.
Dancer2::Core::Role::StandardResponses(3pm) Role to provide commonly used responses.
Dancer2::Core::Role::Template(3pm) Role for template engines.
Dancer2::Core::Route(3pm) Dancer2's route handler.
Dancer2::Core::Runner(3pm) Top-layer class to start a dancer app.
Dancer2::Core::Session(3pm) Class to represent any session object.
Dancer2::Core::Time(3pm) Class to handle common helpers for time manipulations.
Dancer2::Core::Types(3pm) Type::Tiny types for Dancer2 core.
Dancer2::FileUtils(3pm) File utility helpers.
Dancer2::Handler::AutoPage(3pm) Class for handling the AutoPage feature.
Dancer2::Handler::File(3pm) Class for handling file content rendering.
Dancer2::Logger::Capture(3pm) Capture dancer logs.
Dancer2::Logger::Capture::Trap(3pm) A place to store captured Dancer2 logs.
Dancer2::Logger::Console(3pm) Console logger.
Dancer2::Logger::Diag(3pm) Test::More diag() logging engine for Dancer2.
Dancer2::Logger::File(3pm) File-based logging engine for Dancer2.
Dancer2::Logger::LogReport(3pm) Reroute Dancer2 logs into Log::Report.
Dancer2::Logger::Note(3pm) Test::More note() logging engine for Dancer2.
Dancer2::Logger::Null(3pm) Blackhole-like silent logging engine for Dancer2.
Dancer2::Manual(3pm) A gentle introduction to Dancer2.
Dancer2::Manual::Deployment(3pm) Common ways to put your Dancer app into use.
Dancer2::Manual::Migration(3pm) Migrating from Dancer to Dancer2.
Dancer2::Manual::Testing(3pm) Writing tests for Dancer2.
Dancer2::Plugin(3pm) Base class for Dancer2 plugins.
Dancer2::Plugin::Ajax(3pm) A plugin for adding Ajax route handlers.
Dancer2::Plugin::LogReport(3pm) Logging and exceptions via Log::Report.
Dancer2::Plugin::LogReport::Message(3pm) Extended Log::Report message class.
Dancer2::Plugins(3pm) Recommended Dancer2 plugins.
Dancer2::Policy(3pm) Dancer core and community policy and standards of conduct.
Dancer2::Serializer::Dumper(3pm) Serializer for handling Dumper data.
Dancer2::Serializer::JSON(3pm) Serializer for handling JSON data.
Dancer2::Serializer::Mutable(3pm) Serialize and deserialize content based on HTTP header.
Dancer2::Serializer::YAML(3pm) Serializer for handling YAML data.
Dancer2::Session::Simple(3pm) In-memory session backend for Dancer2.
Dancer2::Session::YAML(3pm) YAML-file-based session backend for Dancer2.
Dancer2::Template::Implementation::ForkedTiny(3pm) Dancer2 own implementation of Template::Tiny.
Dancer2::Template::Simple(3pm) Pure Perl 5 template engine for Dancer2.
Dancer2::Template::TemplateToolkit(3pm) Template toolkit engine for Dancer2.
Dancer2::Template::Tiny(3pm) Template::Tiny engine for Dancer2.
Dancer2::Test(3pm) Useful routines for testing Dancer2 apps.
Dancer2::Tutorial(3pm) An example to get you dancing.
Dancer::Logger::LogReport(3pm) Reroute Dancer logs into Log::Report.
Dancer::Plugin::DBIC(3pm) DBIx::Class interface for Dancer applications.
Danga::Socket(3pm) Event loop and event-driven async socket base class.
Data::Alias(3pm) Comprehensive set of aliasing operations.
Data::Clone(3pm) Polymorphic data cloning.
Data::Compare(3pm) Compare perl data structures.