| mcl - the mcl manual page | html | ps |
| mclfaq - the mcl FAQ | html | ps |
| mcxio - the mcl matrix format specification | html | ps |
| mclpipeline - generic pipeline (parsing/matrix creation/clustering/display) | html | ps |
| mcx - interface to basic matrix operations | html | ps |
| mcxassemble - prepare input matrix from cooccurrence scores | html | ps |
| mcxdump - dump matrices, optionally map indices to labels | html | ps |
| mcxarray - transform array data to MCL matrices | html | ps |
| mcxconvert - convert between ascii/binary storage types | html | ps |
| clmformat - display clusterings in browsable format | html | ps |
| clmdist - compute distances between clusterings | html | ps |
| clminfo - performance measures for clusterings | html | ps |
| clmmeet - compute intersection of clusterings | html | ps |
| clmmate - compute best matches between two clusterings | html | ps |
| clmimac - Interpret Matrices (c.q. MCL iterands) As Clusterings | html | ps |
| clmresidue - extend subgraph clusterings onto encompassing graph | html | ps |
| clmorder - reorder indices to represent blocks from different clusterings | html | ps |
| clmclose - fetch connected components from graphs or subgraphs | html | ps |
| mcxio - the mcl matrix format specification | html | ps |
| mcx - interface to basic matrix operations | html | ps |
| mcxsubs - extract submatrices by specifiying sets of nodes and clusters | html | ps |
| mcxmap - remap matrix indices / relabel graph nodes | html | ps |
| mcxassemble - prepare input matrix from cooccurrence scores | html | ps |
| BLAST package - Documentation only available if installed with --enable-blast | ||
|---|---|---|
| mclblastline - pipeline for clustering from blast files | html | ps |
| mcxdeblast - prepare input from blast files | html | ps |