Name: clustertools Version: 0.1 License: GPL License-file: LICENSE Author: Ketil Malde Maintainer: Ketil Malde Category: Bioinformatics Synopsis: Tools for manipulating sequence clusters Description: This is a bunch of stuff I needed at some for manipulating sequence clusters. See the README for details. The tools included are: . * filter - remove unwanted sequences from a clustering . * hist - produce a histogram of cluster sizes from a "label"-formatted clustering. . * clusc - compare clusterings, calculating numerous pair-based and entropy based indices. . * add_single - add singletons to a clustering. . * ace2contigs - parse an ACE assembly file, and output the contigs in a FASTA file. . * ace2fasta - parse an ACE assembly, and output each assembly in a separate FASTA file . * clusterlibs - given a table of regular expressions and library names, along with a clustering (TGICL-format), output a table of clusters with the library name prepended to the sequences. . The Darcs repository is at: . Homepage: http://malde.org/~ketil/ Tested-With: GHC==6.8.2 Build-Type: Simple Cabal-Version: >= 1.2 Data-Files: README Executable filter Hs-source-dirs: src Main-Is: Filter.hs Build-Depends: base>3, containers, simpleargs>=0.1 ghc-options: -Wall -O2 -funbox-strict-fields Executable clusc Hs-source-dirs: src Main-Is: Cluscomp.lhs Build-Depends: bytestring Executable add_single Hs-source-dirs: src Main-Is: AddSingletons.hs Executable ace2contigs Hs-source-dirs: src Main-Is: Ace2Contigs.hs Build-depends: bio>=0.3.3 Executable ace2fasta Hs-source-dirs: src Main-Is: Ace2Fasta.hs Executable clusterlibs Hs-source-dirs: src Main-Is: ClusterLibs.hs Build-depends: regex-compat