HPC Module: VCFtools
Synopsis
Adds VCFtools software to your environment.
| About This Software | |
|---|---|
| Official Site | https://vcftools.github.io/downloads.html |
| Tags | VCF Files |
Installed Versions
| Version | Install Date | Default? |
|---|---|---|
| 490848f | 2016-10-13 |
Description
VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project (http://www.1000genomes.org/). The aim of VCFtools is to provide easily accessible methods for working with complex genetic variation data in the form of VCF files.
This toolset can be used to perform the following operations on VCF files:
+ Filter out specific variants
+ Compare files
+ Summarize variants
+ Convert to different file types
+ Validate and merge files
- Create intersections and subsets of variants
VCFtools consists of two parts, a perl module and a binary executable. The perl module is a general Perl API for manipulating VCF files, whereas the binary executable provides general analysis routines.
Citation(s)
If you use VCFtools in your research, please cite: The Variant Call Format and VCFtools, Petr Danecek, Adam Auton, Goncalo Abecasis, Cornelis A. Albers, Eric Banks, Mark A. DePristo, Robert Handsaker, Gerton Lunter, Gabor Marth, Stephen T. Sherry, Gilean McVean, Richard Durbin and 1000 Genomes Project Analysis Group, Bioinformatics, 2011 http://dx.doi.org/10.1093/bioinformatics/btr330
Category
| Library | Programming | Software | SysAdmin |
|---|---|---|---|