Suite of command-line tools to expedite analysis of exome variant data from multiple patients and multiple variant callers.

The official repository is at:

https://github.com/umich-brcf-bioinf/Jacquard

$ jacquard <subcommand> [options] [arguments]

Subcommands

translate

Creates new VCFs, adding a controlled vocabulary of new FORMAT tags.

merge

Integrates a directory of VCFs into a single VCF.

summarize

Adds new INFO fields and FORMAT tags that combine variant data from the merged VCF.

expand

Explodes a VCF file into a tab-delimited file.

For help on a specific subcommand:

$ jacquard <subcommand> --help

See ReadTheDocs for full documentation.

Email bfx-jacquard@umich.edu for support and questions.

UM BRCF Bioinformatics Core