neil.saunders at unsw.edu.au
Fri Jul 2 01:45:41 EDT 2004
I have a couple of queries regarding the search2gff script.
1) I'm using the latest CVS (1.8) which states "search2gff does the
right thing now - now strand is done right properly". Am I right in
thinking that now target start is always less than target end?
2) Should search2gff work with any BLAST flavour?
I ask because I'm running it on tblastx files. Without the -m switch
it seems to run fine, but if I add -m, I get thrown exceptions looking
like e.g. :
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Undefined sub-sequence (2827710,2827711). Valid range = 2827710 -
The undefined subsequence start/ends always differ by 1.
School of Biotechnology and Biomolecular Sciences,
The University of New South Wales,
More information about the Bioperl-l