Difference between revisions of "Bcbio-nextgen"

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{{Entry
 
{{Entry
|Name=bcbio-nextgen
+
|Name=bcbio
 
|Short description=Genome variant calling and RNA-seq analysis.
 
|Short description=Genome variant calling and RNA-seq analysis.
 
|Full description=A python toolkit providing best-practice pipelines for fully automated high throughput RNA sequencing analysis. It can work with BWA, .bam or .fastq files.
 
|Full description=A python toolkit providing best-practice pipelines for fully automated high throughput RNA sequencing analysis. It can work with BWA, .bam or .fastq files.
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|Is High Priority Project=No
 
|Is High Priority Project=No
 
|VCS checkout command=git clone https://github.com/chapmanb/bcbio-nextgen
 
|VCS checkout command=git clone https://github.com/chapmanb/bcbio-nextgen
|Documentation note=----
 
----
 
'''[https://www.gezapig.nl/covid.html COronaVIrus Disease 2019 (COVID-19) Special]'''
 
----
 
----
 
 
If you have corrections to this entry or questions about it, please contact: mailto:directory-discuss@gnu.org
 
----
 
 
|Decommissioned or Obsolete=No
 
|Decommissioned or Obsolete=No
 
|Version identifier=1.2.1
 
|Version identifier=1.2.1
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|Extension of=Python
 
|Extension of=Python
 
|Component programs=bcbio_nextgen.py
 
|Component programs=bcbio_nextgen.py
|Paid support=https://www.fsf.org/resources/service/
 
 
|Accepts cryptocurrency donations=No
 
|Accepts cryptocurrency donations=No
 
|Test entry=No
 
|Test entry=No
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}}
 
}}
 
{{Resource
 
{{Resource
|Resource audience=Debian (Ref)(R)
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|Resource audience=Debian (Ref) (R)
 
|Resource URL=https://tracker.debian.org/pkg/bcbio
 
|Resource URL=https://tracker.debian.org/pkg/bcbio
 
}}
 
}}
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|Resource audience=Python (Ref)
 
|Resource audience=Python (Ref)
 
|Resource URL=https://pypi.org/project/bcbio-nextgen
 
|Resource URL=https://pypi.org/project/bcbio-nextgen
 +
}}
 +
{{Resource
 +
|Resource kind=VCS Repository Webview
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|Resource URL=https://github.com/chapmanb/bcbio-nextgen
 
}}
 
}}
 
{{Resource
 
{{Resource

Latest revision as of 14:45, 31 March 2020

[edit]

bcbio

https://bcbio-nextgen.readthedocs.org/en/latest/
Genome variant calling and RNA-seq analysis.

A python toolkit providing best-practice pipelines for fully automated high throughput RNA sequencing analysis. It can work with BWA, .bam or .fastq files.

Extension or Plugin

This package can be used as an extension, plugin, or add-on to:





Licensing

License

Verified by

Verified on

Notes

License

Expat

Verified by

Bendikker

Verified on

29 March 2020




Leaders and contributors

Contact(s)Role
Brad Chapman primary contact


Resources and communication

AudienceResource typeURI
geomes and RNA-seq tools user groupMailing Listhttps://groups.google.com/forum/#!forum/biovalidation
Python (Ref)https://pypi.org/project/bcbio-nextgen
Debian (Ref) (R)https://tracker.debian.org/pkg/bcbio
VCS Repository Webviewhttps://github.com/chapmanb/bcbio-nextgen


Software prerequisites

This entry (in part or in whole) was last reviewed on 29 March 2020.



Entry















"primary contact" is not in the list (Maintainer, Contributor, Developer, Sponsor, Unknown) of allowed values for the "Role" property.


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


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




"geomes and RNA-seq tools user group" is not in the list (General, Help, Bug Tracking, Support, Developer) of allowed values for the "Resource audience" property.








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.