Difference between revisions of "Bcbio-nextgen"
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{{Entry | {{Entry | ||
| − | |Name=bcbio | + | |Name=bcbio |
| − | |Short description= | + | |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. | ||
|Homepage URL=https://bcbio-nextgen.readthedocs.org/en/latest/ | |Homepage URL=https://bcbio-nextgen.readthedocs.org/en/latest/ | ||
| − | | | + | |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 | ||
| − | | | + | |Decommissioned or Obsolete=No |
| − | |Version date= | + | |Version identifier=1.2.1 |
| + | |Version date=2020/03/25 | ||
|Version status=stable | |Version status=stable | ||
| − | |Version download=https:// | + | |Version download=https://github.com/bcbio/bcbio-nextgen/archive/v1.2.1.tar.gz |
| − | | | + | |Last review by=Bendikker |
| + | |Last review date=2020/03/29 | ||
|Submitted by=Bethlynn | |Submitted by=Bethlynn | ||
|Submitted date=2014/06/20 | |Submitted date=2014/06/20 | ||
| − | | | + | |Extension of=Python |
| + | |Component programs=bcbio_nextgen.py | ||
| + | |Accepts cryptocurrency donations=No | ||
| + | |Test entry=No | ||
|Is GNU=No | |Is GNU=No | ||
}} | }} | ||
{{Project license | {{Project license | ||
|License=Expat | |License=Expat | ||
| − | |License copyright=Copyright (c) | + | |License copyright=Copyright (c) bcbio-nextgen contributors |
| − | |License | + | |License verified by=Bendikker |
| + | |License verified date=2020/03/29 | ||
}} | }} | ||
{{Person | {{Person | ||
| Line 26: | Line 31: | ||
|Role=primary contact | |Role=primary contact | ||
|Email=chapmanb@50mail.com | |Email=chapmanb@50mail.com | ||
| − | |Resource URL= | + | }} |
| + | {{Resource | ||
| + | |Resource audience=Debian (Ref) (R) | ||
| + | |Resource URL=https://tracker.debian.org/pkg/bcbio | ||
| + | }} | ||
| + | {{Resource | ||
| + | |Resource audience=Python (Ref) | ||
| + | |Resource URL=https://pypi.org/project/bcbio-nextgen | ||
| + | }} | ||
| + | {{Resource | ||
| + | |Resource kind=VCS Repository Webview | ||
| + | |Resource URL=https://github.com/chapmanb/bcbio-nextgen | ||
}} | }} | ||
{{Resource | {{Resource | ||
| Line 33: | Line 49: | ||
|Resource URL=https://groups.google.com/forum/#!forum/biovalidation | |Resource URL=https://groups.google.com/forum/#!forum/biovalidation | ||
}} | }} | ||
| − | |||
{{Software category | {{Software category | ||
|Biology=genetics | |Biology=genetics | ||
| + | |Programming-language=python | ||
| + | |Runs-on=GNU/Linux | ||
|Science=biology | |Science=biology | ||
}} | }} | ||
{{Featured}} | {{Featured}} | ||
Latest revision as of 14:45, 31 March 2020
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.
Licensing
License
Verified by
Verified on
Notes
Leaders and contributors
| Contact(s) | Role |
|---|---|
| Brad Chapman | primary contact |
Resources and communication
| Audience | Resource type | URI |
|---|---|---|
| Debian (Ref) (R) | https://tracker.debian.org/pkg/bcbio | |
| VCS Repository Webview | https://github.com/chapmanb/bcbio-nextgen | |
| Python (Ref) | https://pypi.org/project/bcbio-nextgen | |
| geomes and RNA-seq tools user group | Mailing List | https://groups.google.com/forum/#!forum/biovalidation |
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.