Supported Applications

bedtools

Description

a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic. Bedtools allows one to intersect, merge, count, complement, and shuffle genomic intervals from multiple files in widely-used genomic file formats such as BAM, BED, GFF, VCF. While each individual tool is designed to do a relatively simple task (e.g., intersect two interval files), sophisticated analyses can be conducted by combining multiple bedtools operations on the UNIX command line.
Installation
Use the following command to install this title with the CLI client: $ sbgrid-cli install bedtools
Primary Citation*

A. R. Quinlan and I. M. Hall. 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics. 26(6): 841-842.
- *Full citation information available through