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Old 06-26-2013, 03:06 PM   #2
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Location: Cambridge, UK

Join Date: May 2010
Posts: 311

Originally Posted by jazz View Post
I have heard of intersectbed in bedtools, however the gff files and bed files have genomic coordinates in different columns. can anyone suggest a simple fix for that?
No need to fix anything! Bedtools recognizes the file format (GFF/bed/bam) and handles it accordingly. Have you tried it at all with your files?

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