[Bioperl-l] parsing psiblast + ?
sisterdot
therealsisterdot at gmail.com
Mon Mar 11 10:31:42 UTC 2013
hey hey,
i am using perl v5.10.0 and Bio::SearchIO 1.006901
i would like to use psiblast 2.2.27 + (instead of blastpgp), but parsing
via
new Bio::SearchIO(-format => "blast",-file => "$file")
doesn't seem to work well- individual iterations are interpreted as
separate results.
Bio::SearchIO doesn't seem to really understand "psiblast +" default
pairwise output, or am i mistaken?
if i am not mistaken, are there alternatives in Bioperl for parsing
"psiblast +" with the default "-outfmt 0"?
thanks a lot
sis
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