Difference between revisions of "Bedtools"
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{{Entry | {{Entry | ||
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|Name=Bedtools | |Name=Bedtools | ||
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|Short description=suite of utilities for comparing genomic features | |Short description=suite of utilities for comparing genomic features | ||
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|Full description=The BEDTools utilities allow one to address common genomics tasks | |Full description=The BEDTools utilities allow one to address common genomics tasks | ||
such as finding feature overlaps and computing coverage. The | such as finding feature overlaps and computing coverage. The | ||
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The groupBy utility is distribued in the filo package. | The groupBy utility is distribued in the filo package. | ||
| − | | | + | |Homepage URL=https://github.com/arq5x/bedtools2 |
| − | | | + | |Computer languages=C++ |
| + | |Version identifier=2.26.0 | ||
| + | |Version date=2016/07/06 | ||
| + | |Version status=stable | ||
| + | |Version download=https://github.com/arq5x/bedtools2/releases/download/v2.26.0/bedtools-2.26.0.tar.gz | ||
| + | |Last review by=Tim Howes | ||
| + | |Last review date=2016/10/07 | ||
| + | |Submitted by=Debian import | ||
| + | |Submitted date=2013-03-20 | ||
| + | |Status= | ||
|Is GNU=No | |Is GNU=No | ||
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}} | }} | ||
{{Project license | {{Project license | ||
| − | |License | + | |License=GPLv2 |
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|License copyright=© © 2009,2010,2011 Aaron Quinlan | |License copyright=© © 2009,2010,2011 Aaron Quinlan | ||
© © 2010 - Assaf Gordon, CSHL | © © 2010 - Assaf Gordon, CSHL | ||
| − | + | |License verified by=Debian | |
| − | |License= | + | |License verified date=2013-03-20 |
|License note=License: GPL-2 | |License note=License: GPL-2 | ||
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}} | }} | ||
{{Project license | {{Project license | ||
| + | |License=Other | ||
| + | |License copyright=© © 2009, 2010, 2011 - Aaron Quinlan | ||
| + | |License verified by=Debian | ||
|License verified date=2013-03-20 | |License verified date=2013-03-20 | ||
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|License note=License: under-the-MIT-license | |License note=License: under-the-MIT-license | ||
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}} | }} | ||
{{Project license | {{Project license | ||
| + | |License=GPLv2 | ||
| + | |License copyright=© © 2010 Erik Garrison <erik.garrison@bc.edu> | ||
| + | |License verified by=Debian | ||
|License verified date=2013-03-20 | |License verified date=2013-03-20 | ||
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|License note=License: GPL-2 | |License note=License: GPL-2 | ||
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}} | }} | ||
{{Project license | {{Project license | ||
| + | |License=Other | ||
| + | |License copyright=© © 2009-2010 Derek Barnett, Erik Garrison, Gabor Marth, Michael Stromberg | ||
| + | |License verified by=Debian | ||
|License verified date=2013-03-20 | |License verified date=2013-03-20 | ||
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|License note=License: MIT | |License note=License: MIT | ||
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}} | }} | ||
{{Project license | {{Project license | ||
| + | |License=Other | ||
| + | |License copyright=© © 2001 Deepak Bandyopadhyay, Lutz Kettner | ||
| + | |License verified by=Debian | ||
|License verified date=2013-03-20 | |License verified date=2013-03-20 | ||
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|License note=License: LGPL-2.1 | |License note=License: LGPL-2.1 | ||
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}} | }} | ||
{{Project license | {{Project license | ||
| + | |License=BSD_2Clause | ||
| + | |License copyright=© © 2007-2010 by the Sphinx team | ||
| + | |License verified by=Debian | ||
|License verified date=2013-03-20 | |License verified date=2013-03-20 | ||
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|License note=License: BSD-2-clause | |License note=License: BSD-2-clause | ||
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}} | }} | ||
{{Resource | {{Resource | ||
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|Resource kind=Download | |Resource kind=Download | ||
| + | |Resource URL=https://github.com/arq5x/bedtools2/releases/latest | ||
| + | }} | ||
| + | {{Software category}} | ||
| + | {{Featured}} | ||
| + | {{Import | ||
| + | |Date=2013-03-20 | ||
| + | |Source=Debian import | ||
| + | |Source link=http://packages.debian.org/sid/bedtools | ||
}} | }} | ||
Revision as of 13:56, 7 October 2016
Bedtools
https://bedtools.readthedocs.io/en/latest/
Suite of utilities for comparing genomic features.
The BEDTools utilities allow one to address common genomics tasks such as finding feature overlaps and computing coverage. The utilities are largely based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using BEDTools, one can develop sophisticated pipelines that answer complicated research questions by streaming several BEDTools together.
The groupBy utility is distribued in the filo package.
Licensing
License
Verified by
Verified on
Notes
Leaders and contributors
Resources and communication
| Audience | Resource type | URI |
|---|---|---|
| Mailing List | https://groups.google.com/forum/?fromgroups#!forum/bedtools-discuss | |
| VCS Repository Webview | https://github.com/arq5x/bedtools2 | |
| Debian (Ref) | https://tracker.debian.org/pkg/bedtools | |
| General | https://www.biostars.org/t/bedtools/ |
Software prerequisites
Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License, Version 1.3 or any later version published by the Free Software Foundation; with no Invariant Sections, no Front-Cover Texts, and no Back-Cover Texts. A copy of the license is included in the page “GNU Free Documentation License”.
The copyright and license notices on this page only apply to the text on this page. Any software or copyright-licenses or other similar notices described in this text has its own copyright notice and license, which can usually be found in the distribution or license text itself.