Consensus VCF

[Matthias Begemann]

Hi all,

I experienced that in a few cases a clear pathonic variant was not listet in my final VCF.

I set -N = 1 and expected to have all variants from all three var-caller in the final VCF.

That was obviuosly not the case. 

Is there a way to tell the pipline to combine all variants in a final file?

Thanks!

Matthias