Could someone please post an example of how to calculate strand bias using samtools. I appear to be blocked from that site. Thank you.
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Your IT people block google?!?! You might want to move, or just have them fired for utter incompetence (though "pebcak" is the more likely culprit).
The example from the sourceforge page is:
Code:samtools mpileup -uf ref.fa aln1.bam aln2.bam | bcftools view -bvcg - > var.raw.bcf bcftools view var.raw.bcf | vcfutils.pl varFilter -D100 > var.flt.vcf
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