Samtools mpileup help, version 1.2

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skbrimer

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Join Date: Mar 2014

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Samtools mpileup help, version 1.2

07-13-2015, 06:42 AM

Good morning group,

I have a quick question about how mpileup and bcftools consensus work with segmented genomes. Right now I have genome with 10 segments as the reference file and when I try to use either function I only get the last segment returned.

Is there a way to get all ten back without concatenating them into one long genome?
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