Difference between revisions of "Bedtools"
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{{Entry | {{Entry | ||
|Name=Bedtools | |Name=Bedtools | ||
| − | |Short description= | + | |Short description=Suite of utilities for comparing genomic features. |
|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 | + | |Homepage URL=https://bedtools.readthedocs.io/en/latest/ |
| − | | | + | |Is High Priority Project=No |
| − | | | + | |VCS checkout command=https://github.com/arq5x/bedtools2.git |
| − | |Version identifier=2. | + | |Documentation note=http://quinlanlab.org/tutorials/bedtools/bedtools.html |
| − | |Version date= | + | |
| + | ---- | ||
| + | ---- | ||
| + | |||
| + | If you have corrections to this entry or questions about it, please contact: mailto:directory-discuss@gnu.org | ||
| + | ---- | ||
| + | |Decommissioned or Obsolete=No | ||
| + | |Related projects=pybedtools | ||
| + | |Version identifier=2.29.2 | ||
| + | |Version date=2019/12/17 | ||
|Version status=stable | |Version status=stable | ||
| − | |Version download=https://github.com/arq5x/bedtools2/ | + | |Version download=https://github.com/arq5x/bedtools2/archive/v2.29.2.tar.gz |
|Last review by=Bendikker | |Last review by=Bendikker | ||
| − | |Last review date= | + | |Last review date=2020/03/29 |
|Submitted date=2013-03-20 | |Submitted date=2013-03-20 | ||
| + | |Paid support=https://www.fsf.org/resources/service/ | ||
| + | |Accepts cryptocurrency donations=No | ||
| + | |Test entry=No | ||
|Is GNU=No | |Is GNU=No | ||
}} | }} | ||
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}} | }} | ||
{{Resource | {{Resource | ||
| − | |Resource kind= | + | |Resource kind=VCS Repository Webview |
| − | |Resource URL=https://github.com/arq5x/bedtools2/ | + | |Resource URL=https://github.com/arq5x/bedtools2 |
| + | }} | ||
| + | {{Resource | ||
| + | |Resource kind=Mailing List | ||
| + | |Resource URL=https://groups.google.com/forum/?fromgroups#!forum/bedtools-discuss | ||
| + | }} | ||
| + | {{Resource | ||
| + | |Resource kind=General | ||
| + | |Resource URL=https://www.biostars.org/t/bedtools/ | ||
| + | }} | ||
| + | {{Software category | ||
| + | |Programming-language=C++ | ||
| + | |Runs-on=GNU/Linux | ||
}} | }} | ||
| − | |||
{{Featured}} | {{Featured}} | ||
{{Import | {{Import | ||
Revision as of 06:28, 29 March 2020
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.