# MCLFAMILY(7) - Linux man page online | Overview, conventions, and miscellany

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16 May 2014

**mcl(7) MISCELLANEOUS mcl(7)**NAME mclfamily - a description of the mcl family of cluster applications. mcl is an implementation of the Markov Cluster Algorithm, aka MCL algoritm. It is described in the mcl manual. Several other applications are part of the MCL distribution. This manual pages gives an overview. DESCRIPTION mcl(1) the cluster algorithm mclfaq(7) MCL Frequently Asked Questions mcxio(5) the network/matrix input/output format mcx(1) general network/matrix tasks mcx diameter compute diameter of an undirected network mcx ctty compute betweenness centrality mcx clcf compute clustering coefficient mcx erdos compute shortest paths in graphs mcx query analyse networks at different thresholds mcx alter apply network transformations mcx convert convert between interchange/binary storage types mcxarray(1) transform array data to MCL matrices mcxdump(1) dump a matrix optionally with label substitions mcxload(1) load label data into matrix and tab files mcxrand(1) randomly remove, add, and perturb edge weights mcxmap(1) relabel indices in a graph/matrix mcxsubs(1) extracting submatrices in various ways mcxi(1) general matrix operations mcxassemble(1) create matrices from raw data clm(1) general graph-clustering related tasks clm dist compute split/join distance between clusterings clm vol derive node volatility scores from a set of clusterings clm info compute performance measure for clusterings clm meet compute intersection of clusterings clm mate find best matching clusters between clusterings clm close fetch connected components from graphs or subgraphs clm imac interpret MCL iterand/matrix as clustering clm order reorder indices to represent blocks from different clusterings clm residue extend subgraph clustering clmformat(1) display clusters as html or txt files mclpipeline(1) parsing/assembly/clustering/display mclblastline(1)BLAST pipeline mcxdeblast(1) *parse BLAST files Entries marked * are not available if only a default install is done.

**mcl 14-137 16 May 2014 mcl(7)**

This manual | Reference | Other manuals |
---|---|---|

mclfamily(7) | referred by |
clm(1) | clmclose(1) | clmdist(1) | clmformat(1) | clmimac(1) | clminfo(1) | clminfo2(1) | clmmate(1) | clmmeet(1) | clmoptics(1) | clmorder(1) | clmresidue(1) | clmvol(1) | mcl(1) | mclcm(1) | mclfaq(7) | mclindex(7) | mclpipeline(1) | mcx(1) | mcxalter(1) |

refer to | clm(1) | clmformat(1) | mcl(1) | mclblastline(1) | mclfaq(7) | mclpipeline(1) | mcx(1) | mcxarray(1) | mcxassemble(1) | mcxdeblast(1) | mcxdump(1) | mcxi(1) | mcxio(5) | mcxload(1) | mcxmap(1) | mcxrand(1) | mcxsubs(1) |