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Old 06-07-2014, 01:53 AM   #2
Devon Ryan
Location: Freiburg, Germany

Join Date: Jul 2011
Posts: 3,480

The simplest method would be to just script this in pysam (or whatever language you prefer).

BTW, you can convert the BAM file to fastq and realign that, but it's faster to just write a little python script.
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