https://github.com/brentp/cyvcf2
cython + htslib == fast VCF and BCF processing
https://github.com/brentp/cyvcf2
Keywords
bioinformatics cython genomics htslib vcf
Keywords from Contributors
conda package-management reproducibility workflow-management dna genetics structural-variation tskit trees ngs
Last synced: about 1 year ago
JSON representation
Acceptance Criteria
- Revelant topics? true
- External users? true
- Open source license? true
- Active? true
- Fork? false
Repository metadata
cython + htslib == fast VCF and BCF processing
- Host: GitHub
- URL: https://github.com/brentp/cyvcf2
- Owner: brentp
- License: mit
- Created: 2015-08-12T14:30:29.000Z (almost 10 years ago)
- Default Branch: main
- Last Pushed: 2024-03-01T21:27:15.000Z (over 1 year ago)
- Last Synced: 2024-05-09T09:31:26.169Z (about 1 year ago)
- Topics: bioinformatics, cython, genomics, htslib, vcf
- Language: Cython
- Homepage:
- Size: 14.7 MB
- Stars: 357
- Watchers: 7
- Forks: 71
- Open Issues: 43
- Releases: 0
-
Metadata Files:
- Readme: README.md
- Changelog: CHANGES.md
- License: LICENSE
Owner metadata
- Name: Brent Pedersen
- Login: brentp
- Email:
- Kind: user
- Description: Doing genomics from the Netherlands
- Website:
- Location: Utrecht, The Netherlands
- Twitter: brent_p
- Company:
- Icon url: https://avatars.githubusercontent.com/u/1739?u=f05ed5c6046f039a05492d43621aa08f53f37bbe&v=4
- Repositories: 211
- Last ynced at: 2024-05-20T14:26:50.017Z
- Profile URL: https://github.com/brentp
GitHub Events
Total
- Create event: 114
- Commit comment event: 4
- Issues event: 383
- Watch event: 375
- Delete event: 16
- Member event: 3
- Issue comment event: 1046
- Push event: 424
- Pull request review event: 46
- Pull request review comment event: 69
- Pull request event: 181
- Fork event: 95
Last Year
- Create event: 7
- Delete event: 1
- Fork event: 8
- Issue comment event: 123
- Issues event: 37
- Pull request event: 26
- Pull request review comment event: 15
- Pull request review event: 14
- Push event: 21
- Watch event: 37
Committers metadata
Last synced: about 1 year ago
Total Commits: 461
Total Committers: 42
Avg Commits per committer: 10.976
Development Distribution Score (DDS): 0.265
Commits in past year: 48
Committers in past year: 8
Avg Commits per committer in past year: 6.0
Development Distribution Score (DDS) in past year: 0.646
| Name | Commits | |
|---|---|---|
| Brent Pedersen | b****e@g****m | 339 |
| Tom White | t****e@g****m | 21 |
| graphenn | g****n@g****m | 13 |
| indraniel | i****l@g****m | 12 |
| Jerome Kelleher | jk@w****k | 7 |
| Liang-Bo Wang | l****g@w****u | 5 |
| Måns Magnusson | m****n@s****e | 5 |
| Dave Lawrence | d****w@g****m | 4 |
| Marcel Martin | m****n@s****e | 4 |
| Sam Lichtenberg | s****e@g****m | 4 |
| Nils Homer | n****3 | 4 |
| Graham Gower | g****r@g****m | 3 |
| Michael Hall | m****l@m****h | 3 |
| Tim Millar | t****r | 2 |
| Elias Kuthe | e****e@t****e | 2 |
| LiterallyUniqueLogin | j****e@g****m | 2 |
| Sander Bollen | a****n@l****l | 2 |
| Wouter De Coster | d****r@g****m | 2 |
| arq5x | a****x@v****u | 2 |
| cclauss | c****s@b****h | 2 |
| chapmanb | c****b@5****m | 2 |
| Ben Jeffery | b****y@b****k | 1 |
| Ben Jeffery | b****y@g****m | 1 |
| Derek Croote | d****e | 1 |
| Danilo Horta | d****a@p****e | 1 |
| Dave Larson | d****n@g****u | 1 |
| Gehring, Julian | j****g@i****m | 1 |
| Gilad Mishne | g****d@m****g | 1 |
| James Eapen | j****n@g****m | 1 |
| Johannes Köster | j****r@t****e | 1 |
| and 12 more... | ||
Committer domains:
- scilifelab.se: 2
- tu-dortmund.de: 2
- well.ox.ac.uk: 1
- wustl.edu: 1
- mbh.sh: 1
- lumc.nl: 1
- virginia.edu: 1
- bluewin.ch: 1
- 50mail.com: 1
- bdi.ox.ac.uk: 1
- pm.me: 1
- genome.wustl.edu: 1
- illumina.com: 1
- mishne.org: 1
- isb-sib.ch: 1
- evolbio.mpg.de: 1
- liang2.tw: 1
- rivera.za.net: 1
- gmx.de: 1
- chop.edu: 1
- pixie.org.uk: 1
- yandex.com: 1
- berkeley.edu: 1
- medisin.uio.no: 1
Issue and Pull Request metadata
Last synced: about 1 year ago
Total issues: 96
Total pull requests: 50
Average time to close issues: 6 months
Average time to close pull requests: about 1 month
Total issue authors: 64
Total pull request authors: 20
Average comments per issue: 3.99
Average comments per pull request: 2.58
Merged pull request: 43
Bot issues: 0
Bot pull requests: 0
Past year issues: 21
Past year pull requests: 13
Past year average time to close issues: 11 days
Past year average time to close pull requests: 14 days
Past year issue authors: 17
Past year pull request authors: 7
Past year average comments per issue: 3.0
Past year average comments per pull request: 2.23
Past year merged pull request: 9
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- tomwhite (15)
- davmlaw (4)
- graphenn (4)
- vsbuffalo (3)
- hammer (3)
- grahamgower (3)
- nh13 (2)
- alanwilter (2)
- jeromekelleher (2)
- CholoTook (2)
- brentp (2)
- gnxsf (2)
- nileshpatra (1)
- multimeric (1)
- MikeWazoWski123 (1)
Top Pull Request Authors
- tomwhite (20)
- graphenn (6)
- grahamgower (3)
- Hoeze (2)
- brentp (2)
- EQt (2)
- benjeffery (2)
- stefanor (1)
- ccwang002 (1)
- hyanwong (1)
- oyvinev (1)
- weixuanfu (1)
- CholoTook (1)
- nakib103 (1)
- horta (1)
Top Issue Labels
- enhancement (2)
- bug (1)
Top Pull Request Labels
- enhancement (1)
Package metadata
- Total packages: 3
-
Total downloads:
- pypi: 86,704 last-month
- Total docker downloads: 1,794
- Total dependent packages: 45 (may contain duplicates)
- Total dependent repositories: 99 (may contain duplicates)
- Total versions: 195
- Total maintainers: 2
pypi.org: cyvcf2
fast vcf parsing with cython + htslib
- Homepage: https://github.com/brentp/cyvcf2/
- Documentation: https://cyvcf2.readthedocs.io/
- Licenses: MIT
- Latest release: 0.30.28 (published over 1 year ago)
- Last Synced: 2024-05-25T16:02:42.390Z (about 1 year ago)
- Versions: 94
- Dependent Packages: 43
- Dependent Repositories: 99
- Downloads: 86,704 Last month
- Docker Downloads: 1,794
-
Rankings:
- Dependent packages count: 0.386%
- Docker downloads count: 1.088%
- Dependent repos count: 1.499%
- Downloads: 1.663%
- Average: 2.228%
- Stargazers count: 3.46%
- Forks count: 5.273%
- Maintainers (1)
proxy.golang.org: github.com/brentp/cyvcf2
- Homepage:
- Documentation: https://pkg.go.dev/github.com/brentp/cyvcf2#section-documentation
- Licenses: mit
- Latest release: v0.30.28 (published over 1 year ago)
- Last Synced: 2024-06-02T23:01:01.549Z (about 1 year ago)
- Versions: 100
- Dependent Packages: 0
- Dependent Repositories: 0
-
Rankings:
- Dependent packages count: 9.049%
- Average: 9.627%
- Dependent repos count: 10.204%
spack.io: py-cyvcf2
fast vcf parsing with cython + htslib
- Homepage: https://github.com/brentp/cyvcf2
- Licenses: []
- Latest release: 0.11.7 (published over 3 years ago)
- Last Synced: 2024-06-02T22:41:42.742Z (about 1 year ago)
- Versions: 1
- Dependent Packages: 2
- Dependent Repositories: 0
-
Rankings:
- Dependent repos count: 0.0%
- Average: 11.053%
- Stargazers count: 12.033%
- Forks count: 13.2%
- Dependent packages count: 18.98%
- Maintainers (1)
Dependencies
- click *
- coloredlogs *
- cython >=0.23.3
- numpy *
- click *
- coloredlogs *
- numpy *
- actions/checkout v2 composite
- actions/setup-python v2 composite
- actions/checkout v2 composite
- actions/download-artifact v2 composite
- actions/setup-python v2 composite
- actions/upload-artifact v2 composite
- mxschmitt/action-tmate v3 composite
- pypa/gh-action-pypi-publish release/v1 composite
Score: 21.12172083152304