[Biopython-dev] [Bug 3009] New: Check the FASTA m10 alignment parser works with FASTA36
bugzilla-daemon at portal.open-bio.org
bugzilla-daemon at portal.open-bio.org
Wed Feb 10 22:16:14 UTC 2010
http://bugzilla.open-bio.org/show_bug.cgi?id=3009
Summary: Check the FASTA m10 alignment parser works with FASTA36
Product: Biopython
Version: Not Applicable
Platform: All
OS/Version: All
Status: NEW
Severity: enhancement
Priority: P2
Component: Unit Tests
AssignedTo: biopython-dev at biopython.org
ReportedBy: biopython-bugzilla at maubp.freeserve.co.uk
Bill Pearson has just announced the release of FASTA36:
http://faculty.virginia.edu/wrpearson/fasta/fasta36/
>From his email,
> This version is a major update from FASTA version 35.
> It's main new feature is the ability to report all
> statistically significant alignments between a query
> and library sequence (equivalent to BLAST's multiple
> HSPs). All previous versions of the FASTA program
> reported only the best alignment between the query
> and library sequence, a serious shortcoming when
> comparing a query protein to a multi-exon gene or
> multi-domain protein.
We need to check the FASTA36 -m 10 output, add this to
our unit tests, and update our parser as required.
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