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5 votes

What are values of FILTER column of vcf files produced by Mutect2

You haven't told us what commands you ran, so I am assuming you first ran Mutect2 and then FilterMutectCalls. If so, the ...
  • 9,004
3 votes

Extracting a column from a vcf file

Either the zcat command or gunzip -c will decompress the file in a streaming fashion to the standard output without writing the ...
  • 1,389
2 votes

Error in running Mutect2

Your input file pon.vcf.gz should be a gzip file, but from your file command it looks like it is an HTML file instead. Perhaps ...
  • 2,166

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