gsalib (version 2.1)

gsalib-package: Utility functions for GATK

Description

Utility functions for analysis of genome sequence data with the GATK

Details

Package:

gsalib

Type:

Package

Version:

2.1

Date:

2014-12-09

License:

MIT

LazyLoad:

yes

This package is primarily meant to be used programmatically by GATK tools. However the gsa.read.gatkreport() function can be used to easily read in data from a GATKReport. A GATKReport is a multi-table document generated by GATK tools.

References

http://www.broadinstitute.org/gatk/guide/article?id=1244

Examples

test_file = system.file("inst", "extdata", "test_gatkreport.table", package = "gsalib");
report = gsa.read.gatkreport(test_file);