Bedtools

Tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome. For example, 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/GTF, VCF. While each individual tool is designed to do a relatively simple task (e.g., intersect two interval files), quite sophisticated analyses can be conducted by combining multiple bedtools operations on the UNIX command line.

Version: 2.30.0(G100) 2.26(Bedtools2Marconi)

Availability: GALILEO100, MARCONI

Target: all

Official web site: https://launchpad.net/ubuntu/+source/bedtools/2.24.0-2

Related Commands:

$ module load profile/bioinf

$ module load autoload bedtools

$ module help bedtools

Help and Documentation:

You can find documentation on the system, with the command 'module help bedtools

- The manual is on the web at the original home page (https://github.com/arq5x/bedtools2)

 

CINECA consultants can be reached through the address: superc@cineca.it'''

contact = superc@cineca.it