Bcftools

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Description

BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.

License

GNU GPL v3

Usage

Upcoming modulesystem change alert!

Due to large number of applications and their versions it is not practical to keep them explicitly listed at our wiki pages. Therefore an upgrade of modulefiles is underway. A feature of this upgrade will be the existence of default module for every application. This default choice does not need version number and it will load some (usually latest) version.

You can test the new version now by adding a line

source /cvmfs/software.metacentrum.cz/modulefiles/5.1.0/loadmodules

to your script before loading a module. Then, you can list all versions of bcftools and load default version of bcftools as

module avail bcftools/ # list available modules
module load bcftools   # load (default) module


If you wish to keep up to the current system, it is still possible. Simply list all modules by

module avail bcftools

and choose explicit version you want to use.

Documentation

https://samtools.github.io/bcftools/bcftools.html

Homepage

https://samtools.github.io/bcftools/