[Bioperl-l] 1 small help with WU-BLAST -postsw

[Angshu Kar]

Hi,

I'm using WU-BLASTP in yeast data (all vs all).

Then I'm using :

$hit_object->frac_aligned_query() > 0.5
and
$hit_object->frac_aligned_hit() > 0.5

as filter conditions.

In that I'm getting asymmetric results! I mean I've sequences A,B in
my o/p and not B,A. Has it got something to do with the asymmetry of
BLAST (but I thought -postsw takes care of that)?

Please help.

Thanks,
Angshu







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