The flower package
flower - FLOWgram ExtractoR tools
This is now obsolete, please install the biosff library (which includes the flower exectuable) instead.
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 flowselect executable extracts reads from SFF-files, generating a new SFF-file with a subset of the reads based on various quality criteria.
The flowt program removes (artificial) duplicates from SFF files. It's currently a work in progress, but included if you'd like to play with it. It's faster than other approaches (e.g. CD-HIT), and ought to be more sensitive and specific, but this needs to be proven.
|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|
|Change log||None available|
|Dependencies||array (>=0.1), base (>=3 && <5), binary (==0.4.*), bio (>0.4.9), bytestring (>=0.9.1), cmdargs (>=0.5), containers, mtl, random [details]|
|Maintainer||Ketil Malde <firstname.lastname@example.org>|
|Executables||flowt, flowselect, flower|
|Uploaded||Thu Sep 19 06:28:19 UTC 2013 by KetilMalde|
|Downloads||2344 total (58 in last 30 days)|
|Status||Docs available [build log]|
Successful builds reported [all 1 reports]
For package maintainers and hackage trustees