vcfnullgenofields.md

% VCFNULLGENOFIELDS(1) vcfnullgenofields (vcflib) | vcfnullgenofields (VCF transformation) % Erik Garrison and vcflib contributors

NAME

vcfnullgenofields

SYNOPSIS

vcfnullgenofields [options]

DESCRIPTION

Makes the FORMAT for each variant line the same (uses all the FORMAT fields described in the header). Fills out per-sample fields to match FORMAT. Expands GT values of '.' with number of alleles based on ploidy (eg: './.' for dipolid).

OPTIONS

options:

    -p, --ploidy N   the polidy of missing/null GT fields (default=2)
    -L, --expand_GL  fill in missing GL fields with 0 values (eg: 0,0,0 for diploid 2 alleles)

Type: transformation

EXIT VALUES

0 : Success

not 0 : Failure

SEE ALSO

vcflib(1)

OTHER

Source code

vcfnullgenofields.cpp

LICENSE

Copyright 2011-2024 (C) Erik Garrison and vcflib contributors. MIT licensed. Copyright 2020-2024 (C) Pjotr Prins.