Difference between revisions of "Bedtools"

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{{Entry
 
{{Entry
 
|Name=Bedtools
 
|Name=Bedtools
|Short description=suite of utilities for comparing genomic features
+
|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
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|Homepage URL=https://bedtools.readthedocs.io/en/latest/
|Computer languages=C++
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|Is High Priority Project=No
|Accepts cryptocurrency donations=No
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|VCS checkout command=https://github.com/arq5x/bedtools2.git
|Version identifier=2.26.0
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|Documentation note=http://quinlanlab.org/tutorials/bedtools/bedtools.html
|Version date=2016/07/06
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 +
----
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If you have corrections to this entry or questions about it, please contact: mailto:directory-discuss@gnu.org
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|Decommissioned or Obsolete=No
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|Related projects=pybedtools
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|Version identifier=2.29.2
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|Version date=2019/12/17
 
|Version status=stable
 
|Version status=stable
|Version download=https://github.com/arq5x/bedtools2/releases/download/v2.26.0/bedtools-2.26.0.tar.gz
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|Version download=https://github.com/arq5x/bedtools2/archive/v2.29.2.tar.gz
 
|Last review by=Bendikker
 
|Last review by=Bendikker
|Last review date=2018/02/07
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|Last review date=2020/03/29
 
|Submitted date=2013-03-20
 
|Submitted date=2013-03-20
 +
|Paid support=https://www.fsf.org/resources/service/
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|Accepts cryptocurrency donations=No
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|Test entry=No
 
|Is GNU=No
 
|Is GNU=No
 
}}
 
}}
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}}
 
}}
 
{{Resource
 
{{Resource
|Resource kind=Download
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|Resource kind=VCS Repository Webview
|Resource URL=https://github.com/arq5x/bedtools2/releases/latest
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|Resource URL=https://github.com/arq5x/bedtools2
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}}
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{{Resource
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|Resource kind=Mailing List
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|Resource URL=https://groups.google.com/forum/?fromgroups#!forum/bedtools-discuss
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}}
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{{Resource
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|Resource kind=General
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|Resource URL=https://www.biostars.org/t/bedtools/
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}}
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{{Software category
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|Programming-language=C++
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|Runs-on=GNU/Linux
 
}}
 
}}
{{Software category}}
 
 
{{Featured}}
 
{{Featured}}
 
{{Import
 
{{Import

Revision as of 06:28, 29 March 2020

[edit]

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.

Documentation

http://quinlanlab.org/tutorials/bedtools/bedtools.html

Related Projects





Licensing

License

Verified by

Verified on

Notes

License

GPLv2

Verified by

Debian

Verified on

20 March 2013

License

Expat

Verified by

Debian

Verified on

20 March 2013

Verified by

Debian

Verified on

20 March 2013

Verified by

Debian

Verified on

20 March 2013




Leaders and contributors

Resources and communication

AudienceResource typeURI
Debian (Ref)https://tracker.debian.org/pkg/bedtools
VCS Repository Webviewhttps://github.com/arq5x/bedtools2
Mailing Listhttps://groups.google.com/forum/?fromgroups#!forum/bedtools-discuss
Generalhttps://www.biostars.org/t/bedtools/


Software prerequisites

This entry (in part or in whole) was last reviewed on 30 March 2020.



Entry






Property "Submitted by" (as page type) with input value "{{{Submitted by}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.























"Debian (Ref)" is not in the list (General, Help, Bug Tracking, Support, Developer) of allowed values for the "Resource audience" property.











Date 2013-03-20
Source Debian import
Source link http://packages.debian.org/sid/bedtools

[[Category:]]



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