table of contents
vcflib(1) | vcflib (index) | 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.
vcflib |