SEQanswers - View Single Post - Extract aligned reads from a BAM file above a certain threshold

dpryan · 10-17-2012, 09:27 AM

That would be pretty easy to do in a small perl/python/whatever script. There's also a pretty easy to use C api for samtools. I imagine you could also do that in a bash script, but I would personally find it simpler to just write a quick program.

10-17-2012, 09:27 AM	#3
dpryan Devon Ryan Location: Freiburg, Germany Join Date: Jul 2011 Posts: 3,480	That would be pretty easy to do in a small perl/python/whatever script. There's also a pretty easy to use C api for samtools. I imagine you could also do that in a bash script, but I would personally find it simpler to just write a quick program.