Mercurial > repos > jjohnson > pileup_to_vcf

changeset 8:07cd87e94fbe

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Add REAMDE
author Jim Johnson <jj@umn.edu>
date Thu, 28 Mar 2013 14:55:50 -0500
parents e77ab15bbce9
children c0a6e8f595ec
files README
diffstat 1 files changed, 5 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/README	Thu Mar 28 14:55:50 2013 -0500
@@ -0,0 +1,5 @@
+Cconverts the tabular pileup output from samtools mpileup to a VCF file.  
+Filters on read coverage, base quality and the frequency of a variant.  
+The VCF info is populated with a SAF tag that give the specific frequency (0 - 1) of a variant being observed.
+This is used for filtering in the mmuff ( Missense Mutation and Frameshift Finder) workflow.
+