dephd: Analyze quality of nucleotide sequences.
dephd - A simple tool for base calling and quality appraisal.
Reads files in phd-format (phred output), either specified individually, or in a directory (use the --input-dirs option to read directories or --input-list to read from an index file). Can also read FASTA with an associated quality file.
Can trim according to Lucy or Phred parameters, can mask by quality, can plot graphs (via gnuplot) of sequence quality to a window, or to JPG/EPS files. Can categorize sequences according to overall quality. Also constructs files suitable for submission to dbEST. More information at http://blog.malde.org/index.php/2010/09/07/submitting-ests-upstream/.
fakequal, a utility to generate bogus quality values,
which are sometimes needed by less flexible tools.
The Darcs repository is at http://malde.org/~ketil/biohaskell/dephd.
[Skip to Readme]
|Versions||0.0, 0.1, 0.1.1, 0.1.3, 0.1.4, 0.1.5, 0.1.6|
|Dependencies||base (>=3 && <5), bio (>0.4), bytestring, cmdargs (<=0.1.1), directory, process, regex-compat [details]|
|Maintainer||Ketil Malde <email@example.com>|
|Uploaded||by KetilMalde at Mon Oct 25 06:53:54 UTC 2010|
|Downloads||2693 total (16 in the last 30 days)|
|Rating||(no votes yet) [estimated by rule of succession]|
|Status||Docs not available [build log]
All reported builds failed as of 2016-12-28 [all 7 reports]
Hackage Matrix CI
For package maintainers and hackage trustees