xsact: Cluster EST sequences
Xsact is an EST clustering program with a variety of output options. This package exposes the internal libraries, and provides 4 binaries:
* xsact; implements a complete multiple-matching clustering algorithm. * xcerpt; Extract sequences matching a list of labels. * xplit; This implements a simple splitter for xsact's UniGene-formatted files. Useful if you want to run an assembler on individual clusters. * xtract; the eXperimental TRanscript Assembly/Consensus Tool. The idea is to construct the splice graph from each EST cluster in the input, by first constructing and then traversing the de Bruijn graph of $k-1$-words.
| Version | 1.6 |
|---|---|
| Dependencies | array, base, containers, directory, process, random, unix |
| License | GPL |
| Author | Ketil Malde |
| Maintainer | Ketil Malde <ketil@ii.uib.no> |
| Category | Bioinformatics |
| Home page | http://malde.org/~ketil/ |
| Exposed modules | ANSI, Clix, Cluster, EST, Fasta, Gene, Indexed, Pairs, SpliceGraph, Stats, Suffix, Util, WordMap |
| Executables | xsact, xcerpt, xplit, xtract |
| Upload date | Fri Mar 7 18:37:30 PST 2008 |
| Uploaded by | GwernBranwen |
| Built on | ghc-6.8 |
Downloads
- xsact-1.6.tar.gz (Cabal source package)
- package description (included in the package)