Science Score: 33.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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○codemeta.json file
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○.zenodo.json file
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✓DOI references
Found 3 DOI reference(s) in README -
✓Academic publication links
Links to: sciencedirect.com, springer.com, plos.org, frontiersin.org -
✓Committers with academic emails
1 of 6 committers (16.7%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (10.5%) to scientific vocabulary
Keywords
Repository
circular RNA analysis toolset
Basic Info
- Host: GitHub
- Owner: YangLab
- License: other
- Language: Python
- Default Branch: master
- Homepage: http://circexplorer2.readthedocs.org/
- Size: 160 MB
Statistics
- Stars: 84
- Watchers: 12
- Forks: 45
- Open Issues: 19
- Releases: 0
Topics
Metadata Files
README.md
```
/ _/ _/ _ \/ __/__ _ ______ / /___ ________ _____ / / / // // / / / _ | |// __ \/ / __ \/ __/ _ \/ _/ / // // _, _/ // /> </ // / / // / / / __/ / _/// ||_/_//|/ ./_/_// __// /_/ ```
CIRCexplorer2 is the successor of CIRCexplorer with plenty of new features to facilitate circular RNA identification and characterization.
Authors: Xiao-Ou Zhang (zhangxiaoou@picb.ac.cn), Li Yang (liyang@picb.ac.cn)
Maintainer: Xu-Kai Ma (maxukai@picb.ac.cn)
NEWS:
From version 2.3.0, CIRCexplorer2 has very big changes in inputs and outputs. For new structures, please see http://circexplorer2.readthedocs.org. If you want to check the information for old versions, please see http://circexplorer2.readthedocs.io/en/2.2.7.
CLEAR is a newly developped pipeline compatible with CIRCexplorer2 to help better quantify and compare the expression of circRNAs. (Ma et al., 2020)
CIRCpedia is an integrative database, aiming to annotating alternative back-splicing and alternative splicing in circRNAs across different cell lines. Welcome to use! (Dong et al., 2018)
Features
- Precisely annotate circular RNAs with high accuracy, good sensitivity and low memory consumption [1][2][3]
- Support multiple circular RNA aligners (TopHat2/TopHat-Fusion, STAR, MapSplice, BWA and segemehl)
- De novo assemble novel circular RNA transcripts
- Characterize various of alternative (back-)splicing events of circular RNAs
- Fast identify circuar RNAs with STAR or BWA
- Support both single-read and paired-end sequencing.
CIRCexplorer2 documentation is available through https://readthedocs.org/ from here, including installation instructions and tutorial.
Citation
License
Copyright (C) 2016-2019 YangLab. See the LICENSE file for license rights and limitations (MIT).
Owner
- Name: YangLab
- Login: YangLab
- Kind: organization
- Location: Shanghai, China
- Website: http://www.picb.ac.cn/rnomics
- Repositories: 18
- Profile: https://github.com/YangLab
GitHub Events
Total
- Issues event: 3
- Watch event: 7
- Issue comment event: 2
- Fork event: 3
Last Year
- Issues event: 3
- Watch event: 7
- Issue comment event: 2
- Fork event: 3
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Xiao-Ou Zhang | k****d@g****m | 96 |
| Xu-Kai Ma | x****a@g****m | 27 |
| ma xingma | m****i@y****n | 1 |
| new | n****w@z****u | 1 |
| Roy Lardenoije | 3****e | 1 |
| The Gitter Badger | b****r@g****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 73
- Total pull requests: 4
- Average time to close issues: about 1 month
- Average time to close pull requests: 1 day
- Total issue authors: 56
- Total pull request authors: 3
- Average comments per issue: 1.74
- Average comments per pull request: 2.0
- Merged pull requests: 3
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 2
- Pull requests: 0
- Average time to close issues: about 17 hours
- Average time to close pull requests: N/A
- Issue authors: 2
- Pull request authors: 0
- Average comments per issue: 0.5
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- sambhav2mishra (6)
- andre-gabriel-42 (3)
- kepbod (2)
- gnilihzeux (2)
- smm19900210 (2)
- jianguozhouzunyimedicaluniversity (2)
- gudeqing (2)
- maojn (2)
- kopardev (2)
- smahaffey (2)
- BirongZhang (2)
- BarryDigby (2)
- harshameghadri (1)
- anuiranjan006 (1)
- archu87 (1)
Pull Request Authors
- kepbod (2)
- lardenoije (1)
- ralic (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- pypi 141 last-month
- Total dependent packages: 0
- Total dependent repositories: 1
- Total versions: 19
- Total maintainers: 1
pypi.org: circexplorer2
Circular RNA analysis toolkits
- Homepage: https://github.com/YangLab/CIRCexplorer2
- Documentation: https://circexplorer2.readthedocs.io/
- License: MIT
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Latest release: 2.3.8
published almost 7 years ago
Rankings
Maintainers (1)
Dependencies
- docopt *
- pybedtools ==0.7.5
- pysam >=0.8.4
- requests *
- docopt *
- pybedtools *
- pysam >=0.8.4
- requests *
- scipy *