DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning
DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning - Published in JOSS (2024)
https://github.com/deeprank/deeprank2
Keywords
convolutional-neural-networks deep-learning graph-neural-networks protein-protein-interfaces pytorch single-residue-variants structural-biology
Keywords from Contributors
measur animals archiving transforms annotation conversion ide token optimize community
Last synced: 2 months ago
JSON representation
Acceptance Criteria
- Revelant topics? true
- External users? true
- Open source license? true
- Active? true
- Fork? false
Repository metadata
An open-source deep learning framework for data mining of protein-protein interfaces or single-residue variants.
- Host: GitHub
- URL: https://github.com/deeprank/deeprank2
- Owner: DeepRank
- License: apache-2.0
- Created: 2022-01-21T13:12:57.000Z (almost 4 years ago)
- Default Branch: main
- Last Pushed: 2024-12-18T11:59:10.000Z (about 1 year ago)
- Last Synced: 2025-10-17T21:34:31.736Z (2 months ago)
- Topics: convolutional-neural-networks, deep-learning, graph-neural-networks, protein-protein-interfaces, pytorch, single-residue-variants, structural-biology
- Language: Python
- Homepage: https://deeprank2.readthedocs.io/en/latest/?badge=latest
- Size: 107 MB
- Stars: 55
- Watchers: 6
- Forks: 14
- Open Issues: 30
- Releases: 0
-
Metadata Files:
- Readme: README.dev.md
- Changelog: CHANGELOG.md
- Contributing: CONTRIBUTING.md
- License: LICENSE
- Code of conduct: CODE_OF_CONDUCT.md
- Citation: CITATION.cff
- Zenodo: .zenodo.json
Owner metadata
- Name: DeepRank
- Login: DeepRank
- Email:
- Kind: organization
- Description:
- Website:
- Location:
- Twitter:
- Company:
- Icon url: https://avatars.githubusercontent.com/u/31408512?v=4
- Repositories: 19
- Last ynced at: 2024-05-06T00:03:19.394Z
- Profile URL: https://github.com/DeepRank
GitHub Events
Total
- Issues event: 4
- Watch event: 14
- Issue comment event: 6
- Pull request review event: 1
- Pull request event: 2
- Fork event: 4
- Create event: 1
Last Year
- Issues event: 4
- Watch event: 14
- Issue comment event: 6
- Pull request review event: 1
- Pull request event: 2
- Fork event: 4
- Create event: 1
Committers metadata
Last synced: 2 months ago
Total Commits: 3,021
Total Committers: 35
Avg Commits per committer: 86.314
Development Distribution Score (DDS): 0.662
Commits in past year: 0
Committers in past year: 0
Avg Commits per committer in past year: 0.0
Development Distribution Score (DDS) in past year: 0.0
| Name | Commits | |
|---|---|---|
| gcroci2 | c****a@g****m | 1020 |
| DaniBodor | d****r@e****l | 850 |
| manonreau | m****u@g****m | 285 |
| Coos Baakman | c****n@r****l | 256 |
| Nicolas Renaud | n****d@g****m | 169 |
| Joyce | j****6@g****m | 93 |
| cbaakman | c****n@u****l | 52 |
| Sven van der Burg | s****g@e****l | 44 |
| Chia Yu Lin | c****n@i****l | 30 |
| Giulia Crocioni | c****n@i****l | 30 |
| Chia Yu Lin | c****n@i****l | 22 |
| Giulia Crocioni | c****n@i****l | 21 |
| Daniel Rademaker | 4****r | 18 |
| Manon F. Réau | m****u@i****x | 15 |
| Chia Yu Lin | c****n@s****l | 13 |
| Dani Bodor | d****r@e****l | 13 |
| Giulia Crocioni | c****n@i****l | 12 |
| Chia Yu Lin | c****n@i****l | 12 |
| Giulia Crocioni | c****n@i****l | 11 |
| Manon Réau | m****u@u****l | 10 |
| rgayatri | r****i | 10 |
| Giulia Crocioni | c****n@i****l | 8 |
| Manon F. Réau | m****u@i****x | 4 |
| Giulia Crocioni | c****n@i****l | 4 |
| Farzaneh Parizi | 5****i | 4 |
| Coos Baakman | c****n@r****l | 3 |
| Jennifer Wei | 9****i | 2 |
| Alexandre Bonvin | a****n@g****m | 2 |
| Coos | c****n@g****m | 2 |
| root | r****t@D****n | 1 |
| and 5 more... | ||
Committer domains:
- esciencecenter.nl: 3
- int6.local.snellius.surf.nl: 2
- int5.local.snellius.surf.nl: 2
- int4.local.snellius.surf.nl: 2
- radboudumc.nl: 2
- codacy.com: 1
- desktop-qcbkdu1.localdomain: 1
- gamil.com: 1
- int1.bullx: 1
- int3.local.snellius.surf.nl: 1
- uu.nl: 1
- int2.local.snellius.surf.nl: 1
- int1.local.snellius.surf.nl: 1
- student.vu.nl: 1
- int2.bullx: 1
- umcn.nl: 1
Issue and Pull Request metadata
Last synced: 2 months ago
Total issues: 137
Total pull requests: 147
Average time to close issues: 8 months
Average time to close pull requests: 8 days
Total issue authors: 20
Total pull request authors: 8
Average comments per issue: 1.98
Average comments per pull request: 1.31
Merged pull request: 113
Bot issues: 0
Bot pull requests: 2
Past year issues: 2
Past year pull requests: 2
Past year average time to close issues: N/A
Past year average time to close pull requests: N/A
Past year issue authors: 2
Past year pull request authors: 1
Past year average comments per issue: 0.0
Past year average comments per pull request: 0.5
Past year merged pull request: 0
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- gcroci2 (67)
- DaniBodor (43)
- rubenalv (3)
- Tizzzzy (3)
- DTRademaker (3)
- Lsz-20 (2)
- DanLep97 (2)
- lloydtripp (2)
- aminzia (1)
- abhishektiwari (1)
- cbaakman (1)
- svenvanderburg (1)
- DarioMarzella (1)
- Norgent (1)
- darnells (1)
Top Pull Request Authors
- gcroci2 (92)
- DaniBodor (46)
- DarioMarzella (2)
- dependabot[bot] (2)
- FriederikeBiermann (2)
- cbaakman (1)
- DanLep97 (1)
- jnwei (1)
Top Issue Labels
- stale (47)
- nice to have (23)
- bug (16)
- docs (13)
- feature (13)
- priority (13)
- CI (11)
- needs info (9)
- Query (8)
- blocking (7)
- testing (7)
- tools (6)
- good first issue (6)
- Trainer (6)
- SS (3)
- Dataset (3)
- JOSS (3)
- covariates (3)
- utils (2)
- disc (2)
- MolStruct (2)
- class diagram (2)
- duplicate (2)
- blocked (2)
- tutorials (1)
- framework paper (1)
- neuralnets (1)
Top Pull Request Labels
- stale (11)
- SS (5)
- JOSS (3)
- dependencies (2)
- blocking (2)
- docs (1)
- class diagram (1)
- bug (1)
- Query (1)
Package metadata
- Total packages: 1
-
Total downloads:
- pypi: 70 last-month
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 10
- Total maintainers: 1
pypi.org: deeprank2
DeepRank2 is an open-source deep learning framework for data mining of protein-protein interfaces or single-residue missense variants.
- Homepage:
- Documentation: https://deeprank2.readthedocs.io/en/latest/?badge=latest
- Licenses: Apache-2.0 license
- Latest release: 3.1.0 (published over 1 year ago)
- Last Synced: 2025-10-26T00:42:01.891Z (2 months ago)
- Versions: 10
- Dependent Packages: 0
- Dependent Repositories: 0
- Downloads: 70 Last month
-
Rankings:
- Dependent packages count: 7.366%
- Average: 38.093%
- Dependent repos count: 68.819%
- Maintainers (1)
Score: 12.260679195021046