View Single Post
Old 12-16-2009, 06:45 AM   #5
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,543
Default

Quote:
Originally Posted by lindseyjane View Post
ok, thanks, I am learning to use perl, not familiar with python, so I will write a script to do this in perl.
Fair enough - you may find BioPerl helpful, it has built in FASTQ support.
Quote:
Originally Posted by lindseyjane View Post
Just to clarify, do you know whether I need to alter the reverse read to make the sequence on the same strand as the forward read?
Maybe. I haven't used BFAST so don't know. It shouldn't be too hard to do it if required. Again, BioPerl will have built in reverse complement code, but don't forget to reverse the qualities too.
maubp is offline   Reply With Quote