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Old 04-20-2017, 02:59 AM   #4
Location: Europe

Join Date: Oct 2016
Posts: 60

i didn't work with gVCF until now. If I see it correct you're trying to merge the gvcf files of your samples with vcf-merge. In my understanding vcf-merge cannot handle gvcf files as it doesn't take care of the blocksize.

So as your gvcf files were produced by gatk, CombineGVCFs should be the right tool for merging.

fin swimmer
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