https://github.com/rickgelhausen/hribo
We present HRIBO (High-throughput annotation by Ribo-seq), a workflow to enable reproducible and high-throughput analysis of bacterial Ribo-seq data. The workflow performs all required pre-processing steps and quality control. Importantly, HRIBO outputs annotation-independent ORF predictions based on two complementary prokaryotic-focused tools, and integrates them with additional computed features. This facilitates both the rapid discovery of ORFs and their prioritization for functional characterization.
https://github.com/rickgelhausen/hribo
Keywords
bioinformatics prokaryotes ribosome-profiling snakemake
Keywords from Contributors
conda package-management
Last synced: 11 months ago
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Acceptance Criteria
- Revelant topics? true
- External users? true
- Open source license? true
- Active? true
- Fork? false
Repository metadata
We present HRIBO (High-throughput annotation by Ribo-seq), a workflow to enable reproducible and high-throughput analysis of bacterial Ribo-seq data. The workflow performs all required pre-processing steps and quality control. Importantly, HRIBO outputs annotation-independent ORF predictions based on two complementary prokaryotic-focused tools, and integrates them with additional computed features. This facilitates both the rapid discovery of ORFs and their prioritization for functional characterization.
- Host: GitHub
- URL: https://github.com/rickgelhausen/hribo
- Owner: RickGelhausen
- License: gpl-3.0
- Created: 2018-08-30T08:25:52.000Z (over 6 years ago)
- Default Branch: master
- Last Pushed: 2024-04-19T18:26:34.000Z (about 1 year ago)
- Last Synced: 2024-05-20T10:20:26.268Z (12 months ago)
- Topics: bioinformatics, prokaryotes, ribosome-profiling, snakemake
- Language: Python
- Homepage:
- Size: 2.65 MB
- Stars: 8
- Watchers: 5
- Forks: 3
- Open Issues: 4
- Releases: 0
-
Metadata Files:
- Readme: README.md
- Changelog: ChangeLog.md
- License: LICENSE
Owner metadata
- Name: Rick
- Login: RickGelhausen
- Email:
- Kind: user
- Description:
- Website:
- Location:
- Twitter:
- Company:
- Icon url: https://avatars.githubusercontent.com/u/18700339?u=1c47a4c9bc26f26ded673274bf9fae24d87f22d9&v=4
- Repositories: 19
- Last ynced at: 2023-08-02T23:21:27.107Z
- Profile URL: https://github.com/RickGelhausen
GitHub Events
Total
- Create event: 19
- Issues event: 9
- Release event: 12
- Watch event: 8
- Delete event: 4
- Issue comment event: 6
- Push event: 198
- Public event: 1
- Pull request event: 15
- Fork event: 3
Last Year
- Create event: 2
- Issue comment event: 4
- Issues event: 2
- Push event: 11
- Release event: 2
- Watch event: 1
Committers metadata
Last synced: over 1 year ago
Total Commits: 752
Total Committers: 6
Avg Commits per committer: 125.333
Development Distribution Score (DDS): 0.404
Commits in past year: 22
Committers in past year: 1
Avg Commits per committer in past year: 22.0
Development Distribution Score (DDS) in past year: 0.0
| Name | Commits | |
|---|---|---|
| RickGelhausen | r****n@g****m | 448 |
| Florian Eggenhofer | e****g@i****e | 291 |
| Florian Eggenhofer | e****g@t****t | 5 |
| Ubuntu | u****u@t****l | 5 |
| Florian Eggenhofer | f****n@e****u | 2 |
| Rick Gelhausen | g****r@c****e | 1 |
Committer domains:
Issue and Pull Request metadata
Last synced: 12 months ago
Total issues: 29
Total pull requests: 26
Average time to close issues: 10 months
Average time to close pull requests: about 2 hours
Total issue authors: 3
Total pull request authors: 2
Average comments per issue: 1.31
Average comments per pull request: 0.08
Merged pull request: 26
Bot issues: 0
Bot pull requests: 0
Past year issues: 1
Past year pull requests: 0
Past year average time to close issues: 3 days
Past year average time to close pull requests: N/A
Past year issue authors: 1
Past year pull request authors: 0
Past year average comments per issue: 5.0
Past year average comments per pull request: 0
Past year merged pull request: 0
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- RickGelhausen (23)
- eggzilla (5)
- FranckS (1)
Top Pull Request Authors
- RickGelhausen (15)
- eggzilla (11)
Top Issue Labels
- enhancement (14)
- bug (3)
- user request (2)
Top Pull Request Labels
- enhancement (2)
- workinprogress (1)
Package metadata
- Total packages: 1
-
Total downloads:
- pypi: 9 last-month
- Total dependent packages: 0
- Total dependent repositories: 1
- Total versions: 1
- Total maintainers: 1
pypi.org: hribo
HRIBO (High-throughput annotation by Ribo-seq), a workflow to enable reproducible and high-throughput analysis of bacterial Ribo-seq data.
- Homepage: https://github.com/RickGelhausen/HRIBO
- Documentation: https://hribo.readthedocs.io/
- Licenses: GNU General Public License v3 or later (GPLv3+)
- Latest release: 1.5.0 (published almost 4 years ago)
- Last Synced: 2024-05-20T10:20:22.443Z (12 months ago)
- Versions: 1
- Dependent Packages: 0
- Dependent Repositories: 1
- Downloads: 9 Last month
-
Rankings:
- Dependent packages count: 10.052%
- Forks count: 16.824%
- Stargazers count: 18.46%
- Dependent repos count: 21.642%
- Average: 22.338%
- Downloads: 44.712%
- Maintainers (1)
Score: 6.674561391814426