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Old 10-17-2016, 04:46 AM   #1
Junior Member
Location: Germany

Join Date: Oct 2016
Posts: 1
Default Combining VCF from different callers


I'm searching for a tool to combine VCF files from different caller.

Since several paper now stated, what I've also measured, that the concordance of the different variant callers aren't too good, I would like to run the calling on multiple variant caller, and in the end combine the different calls. But I don't just want to combine them but instead get a VCF file containing all found variants an for each variant an entry in the INFO field how many of the caller found the mutation. In the end I want to filter on that criteria.

Now my question is, is do you know of any tool out there which does something like this? So far I couldn't find any. What I found was BAYSIC which does something similar, but already performes some kind of analysis.

Thanks in advance,
swindhard is offline   Reply With Quote
Old 10-20-2016, 10:14 AM   #2
Location: cinci

Join Date: Apr 2010
Posts: 66

You might try free VariantInterpreter from Illumina
husamia is offline   Reply With Quote

pipeline, variant caller

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