I’m using a local instance of Galaxy.  I’d like to filter a VCF file for SNPs 
that have passed filter (as indicated in the VCF file as “PASS” under column 7, 
FILTER).  I can use the basic tab file filter tool (c7==’PASS’), but the 
resulting file has lost the VCF header and that’s causing a problem with the 
annotation tool that I want to use.  Any advice on how to get around this?



Laura Reinholdt, PhD
Research Scientist
Genetic Resource Science
The Jackson Laboratory
600 Main Street
Bar Harbor, ME 04609-1500
(207) 288-6000, ext. 6693


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