https://github.com/kdm9/gbsman

GBSman manages the analysis and storage of reduced representation sequencing.
https://github.com/kdm9/gbsman

Last synced: about 2 months ago
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GBSman manages the analysis and storage of reduced representation sequencing.

• Host: GitHub
• URL: https://github.com/kdm9/gbsman
• Owner: kdm9
• License: gpl-3.0
• Created: 2015-04-19T01:11:14.000Z (about 10 years ago)
• Default Branch: master
• Last Pushed: 2015-07-31T07:59:43.000Z (almost 10 years ago)
• Last Synced: 2025-02-14T18:53:07.297Z (4 months ago)
• Size: 145 KB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
GBS Manager

===========

**This is alpha code, under heavy development. Use it like you'd use `rm -rf`.**

Scripts and pipelines to analyse reduced representation sequencing, including

automated job preparation and submission.

Built with python, jinja2 and doit.

Under the hood, it runs:

1. FastQC

2. Axe

3. scythe and sickle, OR trimmomatic

4. Tassel (bwa pipeline), OR UNEAK, OR {p,u}Stacks

Implementation progress

-----------------------

- [ ] Data storage/naming/retrieval

- [ ] SGE/PBS backends

- [ ] QC

- [ ] Demultiplexing

- [ ] Sequence Analysis

- [ ] Post analysis and result archiving

License

-------

GBSman is licensed under the GNU GPL version 3 or (at your option) any later

version.