The bio package

[Tags: lgpl, library]

This is a collection of data structures and algorithms I've found useful when building various bioinformatics-related tools and utilities.

Current list of features includes: a Sequence data type supporting protein and nucleotide sequences and conversion between them, quality data, reading and writing Fasta formatted files, reading TwoBit and phd formats. Rudimentary support for doing alignments - including dynamic adjustment of scores based on sequence quality - and Blast output parsing. Partly implemented single linkage clustering, and multiple alignment.

The Darcs repository is at: http://malde.org/~ketil/biohaskell/biolib.


Properties

Versions0.3.3, 0.3.3.1, 0.3.3.2, 0.3.3.4, 0.3.5, 0.4, 0.4.4, 0.4.5, 0.4.6, 0.4.7, 0.4.8, 0.5, 0.5.0.1, 0.5.1, 0.5.2, 0.5.3
Dependenciesarray, base (>3), binary, bytestring, containers, parallel, parsec, QuickCheck (<2), tagsoup (>=0.4)
LicenseLGPL
AuthorKetil Malde
Maintainerketil@ii.uib.no
CategoryBioinformatics
Home pagehttp://malde.org/~ketil/
Upload dateThu Jul 31 05:08:49 UTC 2008
Uploaded byKetilMalde
DistributionsFreeBSD:0.5.2
Downloads1147 total (141 in last 30 days)

Modules

Downloads

Maintainers' corner

For package maintainers and hackage trustees