@hackage clustertools0.1

Tools for manipulating sequence clusters

Categories
- Bioinformatics
License
LicenseRef-GPL
Maintainer
Ketil Malde <ketil@ii.uib.no>
Links
- Homepage
- Documentation
- No source repository
- Security
Versions
- 0.1.5 Mon, 6 Jun 2011
- 0.1.2 Fri, 30 Jan 2009
- 0.1.1 Thu, 31 Jul 2008
- 0.1 Sat, 8 Mar 2008

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.