Mercurial > repos > jjohnson > pileup_to_vcf

comparison README @ 8:07cd87e94fbe

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Add REAMDE
author Jim Johnson <jj@umn.edu>
date Thu, 28 Mar 2013 14:55:50 -0500
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children c0a6e8f595ec
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7:e77ab15bbce9 8:07cd87e94fbe
1 Cconverts the tabular pileup output from samtools mpileup to a VCF file.
2 Filters on read coverage, base quality and the frequency of a variant.
3 The VCF info is populated with a SAF tag that give the specific frequency (0 - 1) of a variant being observed.
4 This is used for filtering in the mmuff ( Missense Mutation and Frameshift Finder) workflow.
5