The flower package

[ Tags: bioinformatics, gpl, program ] [ Propose Tags ]

flower - FLOWgram ExtractoR tools

The flower executable reads files in SFF-format and produces various output, including sequences with quality, or flowgram data in tabular format. By default, it outputs a textual representation of the data in the SFF-file, much like sffinfo from Roche does.

The fselect executable extracts reads from SFF-files, generating a new SFF-file with a subset of the reads based on various criteria.

Sometimes SFF files will appear to be corrupted, with all-zero blocks in the file. The frecover program ignores these and tries to resync with the file after an invalid region. This was likely a one-time bug in the 454 software, so this program is probably not so useful any more.

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

Properties

Versions 0.1, 0.1.1, 0.1.2, 0.2, 0.3, 0.4, 0.5, 0.6, 0.6.1, 0.6.3, 0.6.5, 0.7, 0.7.2
Dependencies array (>=0.1), base (>=3 && <5), binary (==0.4.*), bio (>=0.4.7), bytestring (>=0.9.1), cmdargs (>=0.5), containers, mtl, random [details]
License GPL
Author Ketil Malde
Maintainer Ketil Malde <ketil@malde.org>
Category Bioinformatics
Home page http://blog.malde.org/index.php/flower/
Uploaded Fri Oct 22 10:56:17 UTC 2010 by KetilMalde
Distributions NixOS:0.7.2
Executables flowt, frename, frecover, flowselect, flower
Downloads 3040 total (39 in the last 30 days)
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Status Docs not available [build log]
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