BEDTools specifications

Unique identifier:
OMICS_01159
Interface:
Command line interface
Input format:
BED, BAM, VCF, GFF
Operating system:
Unix/Linux
License:
GNU General Public License version 2.0
Stability:
Stable
Software type:
Toolkit/Suite
Restrictions to use:
None
Output format:
BED, BAM, VCF, GFF, BAI
Programming languages:
C++
Computer skills:
Advanced
Maintained:
Yes

Subtools

  • coverageBed
  • multiBamCov
  • mergeBed
  • IntersectBed

versioning

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No versioning.

BEDTools distribution

download

BEDTools support

Documentation

Maintainer

  • Aaron R. Quinlan <>

forum

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Credits

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Publications

Institution(s)

Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine and Center for Public Health Genomics, University of Virginia, Charlottesville, VA, USA

User review

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Fabien Pichon

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Another indispensable tools suite to have, particularly if you work with .bed files, of course !
In comparison, however, Homer is better if you want to intersect further files because it gives more details, ideal to create a Venn diagram !
A big plus of bedtools : tools are very well documented, with schemes ! I like: "shuffle" to randomly relocate peaks, to test significance of a pathway enrichment for example !

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