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Old 08-01-2011, 01:51 AM   #1
NicoBxl
not just another member
 
Location: Belgium

Join Date: Aug 2010
Posts: 264
Default extract alignment from SAM with a GFF file

Hi,

All is in the title. I aligned small reads (~25nt) with bowtie on my reference genome and I've a GFF file with annotations.

Is it possible to extract only the alignment that are in the gff file ?

Thanks,

N.
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