[Bioperl-l] Bio::SearchIO::hmmer hsp behaviour

Bernd Web bernd.web at gmail.com
Fri Jun 30 08:45:15 EDT 2006


>My original question was essentially: does doing it my way make sense?
With respect to Sendu's points, I can only say that a colleague
(developer) and I were surprised that the HMMer parser did not group
the hits as the blast parser does, in "Hit" and "Hsp".
When we realized how hmmer parsing worked we continued with to use it
but used a check for multiple hits of one domain on 1 query sequence
(e.g. in hmmpfam).


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