VCFGENOTYPES

NAME

vcfgenotypes

SYNOPSIS

vcfgenotypes

DESCRIPTION

Report the genotypes for each sample, for each variant in the VCF. Convert the numerical represenation of genotypes provided by the GT field to a human-readable genotype format.

OPTIONS

EXAMPLES

Example:

**vcfgenotypes** samples/sample.vcf

19 111 A C A,C NA00001:A/A NA00002:A/A NA00003:A/C
19 112 A G A,G NA00001:A/A NA00002:A/A NA00003:A/G
20 14370 G A G,A NA00001:G/G NA00002:G/A NA00003:A/A
20 17330 T A T,A NA00001:T/T NA00002:T/A NA00003:T/T
20 1110696 A G,T A,G,T NA00001:G/T NA00002:G/T NA00003:T/T
20 1230237 T . T,. NA00001:T/T NA00002:T/T NA00003:T/T
20 1234567 G GA,GAC G,GA,GAC NA00001:G/GA NA00002:G/GAC NA00003:GA/GA
20 1235237 T . T,. NA00001:T/T NA00002:T/T NA00003:./.
X 10 AC A,ATG AC,A,ATG NA00001:AC NA00002:AC/A NA00003:AC/ATG

Type: statistics

EXIT VALUES

	0		Success
	not 0		Failure

SEE ALSO

vcflib(1)

OTHER

LICENSE

Copyright 2011-2022 (C) Erik Garrison and vcflib contributors. MIT licensed.

AUTHORS

Erik Garrison and vcflib contributors.