[Bioperl-l] BLAST scores

michael watson (IAH-C) michael.watson at bbsrc.ac.uk
Mon Jul 4 03:59:18 EDT 2005

On another note, I was parsing BLAST output using Bio::SearchIO and
found it took ages - so I switched to BPLite and my parsing took about a
tenth of the time - you may want to try it :-)

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org] On Behalf Of Josh
Sent: 30 June 2005 22:03
To: bioperl-l at portal.open-bio.org
Subject: [Bioperl-l] BLAST scores

Not really a BioPerl question, but... 

I ran a bunch of blasts using the tablular output. However, I need the
score reported and it apparently doesn't do that. The reason I'm using
the tabular format is to speed parsing, since that was taking more than
half the CPU time... Anyhow, is there anyway to compute the score from
the e-value and/or bit scores? Or am I stuck rerunning all those blasts?



| Josh Lauricha            | Ford, you're turning    |
| laurichj at bioinfo.ucr.edu | into a penguin. Stop    |
| Bioinformatics, UCR      | it                      |
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