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vcftools

designed for working with VCF files

Variants:
VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project. The aim of VCFtools is to provide methods for working with VCF files: validating, merging, comparing and calculate some basic population genetic statistics.
Homepage:
Package version:0.1.9-1
Architecture:amd64
Distribution:Debian
Filename:vcftools_0.1.9-1_amd64.deb

/usr/share/man/man1/fill-aa.1.gz

FILL-AA(1)                  User Commands                 FILL-AA(1)



NAME
       fill-aa - fill in ancestral alleles

SYNOPSIS
       fill-aa [OPTIONS]

DESCRIPTION
              zcat  file.vcf.gz | fill-aa -a ancestral-alleles.fa.gz
              | bgzip -c > out.vcf.gz

OPTIONS
       -a <file.gz>
              file containing acestral alleles



fill-aa 0.1.5                 July 2011       
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/usr/share/man/man1/fill-an-ac.1.gz

FILL-AN-AC(1)               User Commands              FILL-AN-AC(1)



NAME
       fill-an-ac - fill or recalculate AN and AC INFO fields.

SYNOPSIS
       fill-an-ac

DESCRIPTION
              zcat file.vcf.gz | fill-an-ac | bgzip -c > out.vcf.gz



fill-an-ac 0.1.5              July 2011                FILL-AN-AC(1)

/usr/share/man/man1/fill-rsIDs.1.gz

FILL-RSIDS(1)               User Commands              FILL-RSIDS(1)



NAME
       fill-rsIDs - fill missing rsIDs

SYNOPSIS
       fill-rsIDs [OPTIONS]

DESCRIPTION
              zcat file.vcf.gz | fill-rsIDs -r dbSNP_ids_129.txt.bgz
              | bgzip -c > out.vcf.gz

OPTIONS
       -r <file.bgz>
              file containing ids



fill-rsIDs 0.1.5              July 2011                FILL
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/usr/share/man/man1/vcf-annotate.1.gz

VCF-ANNOTATE(1)             User Commands            VCF-ANNOTATE(1)



NAME
       vcf-annotate - a
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/usr/share/man/man1/vcf-compare.1.gz

VCF-COMPARE(1)              User Commands             VCF-COMPARE(1)



NAME
       vcf-compare - co
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/usr/share/man/man1/vcf-concat.1.gz

VCF-CONCAT(1)               User Commands              VCF-CONCAT(1)



NAME
       vcf-concat - con
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/usr/share/man/man1/vcf-convert.1.gz

VCF-CONVERT(1)              User Commands             VCF-CONVERT(1)



NAME
       vcf-convert - co
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/usr/share/man/man1/vcf-isec.1.gz

VCF-ISEC(1)                 User Commands                VCF-ISEC(1)



NAME
       vcf-isec  -  cre
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