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GenoMax · 02-07-2014, 09:16 AM

Sort and index your bam file. Then you can use "samtools idxstats" / "samtools flagstat".

02-07-2014, 09:16 AM	#2
GenoMax Senior Member Location: East Coast USA Join Date: Feb 2008 Posts: 7,080	Sort and index your bam file. Then you can use "samtools idxstats" / "samtools flagstat".