[Bioperl-l] capturing non-hitting queries

[nkuipers]

Hello all,

This may be more of a general bioinformatics how-to unless of course bioperl 
actually has something for this application.  I am interested in recovering 
query sequences that gave the BLAST errors "No hits found" or "No 
Karlin-Altschul..." or "No valid letters..." etc.  Such results do not include 
the query sequence in the XML BLAST report as far as I can see.  Must I roll 
my own to extract them from the BLAST infile, or does bioperl have a method 
for doing this?  If the former, does anyone have some code that they've been 
using and wouldn't mind sharing (why reinvent the wheel)?  If the latter, what 
is it?

Many thanks,

Nathanael Kuipers