[Bioperl-l] project ideas

[Brian Osborne]

Richard,

There's one SeqIO module that's had a good start but is unfinished,
SeqIO::locuslink. What it's missing is a hierarchical treatment of the
LocusLink fields - currently it returns all the values, I think, but in
flattened form. For example, a gene may have multiple "products" or
"transcript variants" but the association between these sequences and their
respective attributes, like domains for example, is lost. Its original
author knows this but has said he doesn't currently have time to complete
the module.

No, this is not a test, but I'd say it's an important module even if it's
only a "Genbank thing".

Brian O.

-----Original Message-----
From: bioperl-l-bounces at bioperl.org [mailto:bioperl-l-bounces at bioperl.org]On
Behalf Of Richard Adams
Sent: Wednesday, February 12, 2003 8:41 AM
To: bioperl-l at bioperl.org
Subject: [Bioperl-l] project ideas

I'd like to start contributing to bioperl so if it's a good place to
start I'll volunteer
for designing new Bio::SeqIO test cases, if it's still going.
Let me know what sort of tests you'd need.

Richard Adams
Universitry of Edinburgh
UK

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