Bioperl: is there a $hit->db method in Blast module?

Catherine Letondal letondal@pasteur.fr
Tue, 10 Nov 1998 20:23:30 +0100


Hi,

I am using Blast module version 0.062.

I know that there is a method to get the name ($hit->name) of the subject
sequence, but is it possible to get the database "name" of the subject 
as it appears in the HSP list of blast reports:

sp|P52607|FLII_BORBU FLAGELLUM-SPECIFIC ATP SYNTHASE (EC 3.6.1....    27  0.84

In this example, the "sp" string could be useful to fetch the entire entry from 
the corresponding sequence database (Swissprot), not only the HSP part of this sequence 
with the $hsp->seq_str('sbjct')).

Thanks in advance,

-- 
Catherine Letondal -- letondal@pasteur.fr -- +33 (1) 40 61 31 91
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