Bcftools

Software Summary

Mesabi

Default Module: 

1.2

Other Modules Available: 

0.2.0, 1.2, 1.6

Last Updated On: 

Thursday, October 19, 2017

Itasca

Default Module: 

1.2

Other Modules Available: 

0.2.0, 1.2, 1.6

Last Updated On: 

Thursday, October 19, 2017

Lab

Default Module: 

1.2

Other Versions Available: 

0.2.0, 1.2, 1.6

Last Updated On: 

Thursday, October 19, 2017

Last Updated On: 

Thursday, October 19, 2017

Support Level: 
Primary Support
Software Access Level: 
Open Access
Software Categories: 
Genetics
Software Description
Software Description: 

BCFtools are meant as a faster replacement for most of the perl VCFTools commands.

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.

Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF will work in all situations. Un-indexed VCF and BCF and streams will work in most, but not all situations.

Bcftools is designed to work on a stream. It regards an input file "-" as the standard input (stdin) and outputs to the standard output (stdout). Several commands can thus be combined with Unix pipes.

 

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