The clustertools package (version 0.1)
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: http://malde.org/~ketil/cluster_tools.
| Dependencies | base (>3), bio (>=0.3.3), bytestring, containers, regex-compat, simpleargs (>=0.1) |
|---|---|
| License | GPL |
| Author | Ketil Malde |
| Maintainer | Ketil Malde <ketil@ii.uib.no> |
| Category | Bioinformatics |
| Home page | http://malde.org/~ketil/ |
| Executables | filter, clusc, add_single, ace2contigs, ace2fasta, clusterlibs |
| Upload date | Fri Mar 7 19:09:06 PST 2008 |
| Uploaded by | GwernBranwen |
| Build failure | ghc-6.8 (log) |
Downloads
- clustertools-0.1.tar.gz (Cabal source package)
- package description (included in the package)