vcfannotate.md

% VCFANNOTATE(1) vcfannotate (vcflib) | vcfannotate (VCF transformation) % Erik Garrison and vcflib contributors

NAME

vcfannotate

SYNOPSIS

vcfannotate [options] []

DESCRIPTION

Intersect the records in the VCF file with targets provided in a BED file. Intersections are done on the reference sequences in the VCF file. If no VCF filename is specified on the command line (last argument) the VCF read from stdin.

OPTIONS

options:
    -b, --bed   use annotations provided by this BED file
    -k, --key   use this INFO field key for the annotations
    -d, --default  use this INFO field key for records without annotations

Type: transformation

EXIT VALUES

0 : Success

not 0 : Failure

SEE ALSO

vcflib(1)

OTHER

Source code

vcfannotate.cpp

LICENSE

Copyright 2011-2023 (C) Erik Garrison and vcflib contributors. MIT licensed.