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steve-federowicz/gist:f81d88f15c93d88fe628

Last active August 29, 2015 14:08
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Bash one-liner for getting total reads of all bam files in a folder with samtools
Raw
gistfile1.txt
for i in *.bam; do echo -n -e $i'\t'; samtools flagstat $i | head -n1 | cut -c 1-8; done
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