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VCFSTATS(1) vcfstats (VCF statistics) VCFSTATS(1) NAME vcfstats SYNOPSIS vcfstats options DESCRIPTION Prints statistics about variants in the input VCF file. OPTIONS -r, --region specify a region on which to target the stats, requires a BGZF compressed file which has been indexed with tabix. any number of regions may be specified. -a, --add-info add the statistics intermediate information to the VCF file, writing out VCF records instead of summary statistics -t, --add-type only add the type= field to the info (faster than -a) -l, --no-length-frequency don't out the indel and mnp length-frequency spectra -m, --match-score N match score for SW algorithm -x, --mismatch-score N mismatch score for SW algorithm -o, --gap-open-penalty N gap open penalty for SW algorithm -e, --gap-extend-penalty N gap extension penalty for SW algorithm Type: statistics EXIT VALUES 0 Success not 0 Failure SEE ALSO vcflib(1) OTHER LICENSE Copyright 2011-2025 (C) Erik Garrison and vcflib contributors. MIT li- censed. Copyright 2020-2025 (C) Pjotr Prins. AUTHORS Erik Garrison and vcflib contributors. vcfstats (vcflib) VCFSTATS(1)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | EXIT VALUES | SEE ALSO | OTHER | LICENSE | AUTHORS
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