vcflib(1)

NAME

vcflib index

DESCRIPTION

vcflib contains tools and libraries for dealing with the Variant Call Format (VCF) which is a flat-file, tab-delimited textual format intended to describe reference-indexed variations between individuals.

VCF provides a common interchange format for the description of variation in individuals and populations of samples, and has become the defacto standard reporting format for a wide array of genomic variant detectors.

vcflib provides methods to manipulate and interpret sequence variation as it can be described by VCF. It is both:

•   an API for parsing and operating on records of genomic variation as it can be described by the VCF format,

•   and a collection of command-line utilities for executing complex manipulations on VCF files.

The API itself provides a quick and extremely permissive method to read and write VCF files. Extensions and applications of the library provided in the included utilities (*.cpp) comprise the vast bulk of the library’s utility for most users.

  filter

filter command | description

  metrics

metrics command | description

  phenotype

phenotype command | description

  genotype

genotype command | description

  transformation

transformation command | description

  statistics

statistics command | description

SOURCE CODE

See the source code repository at https://github.com/vcflib/vcflib

LICENSE

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

AUTHORS
Erik Garrison and vcflib contributors.