Skip to content

Pull requests: NVIDIA-BioNeMo/bionemo-recipes

New pull request New
206 Open 1,414 Closed
206 Open 1,414 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Reviews
Filter by reviews
No reviews Review required Approved review Changes requested
Assignee
Filter by who’s assigned
Assigned to nobody Loading
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Pull requests list

Support singleton datasets in shuffled epoch resampling
#1759 opened Sep 21, 2026 by VishnuR23 Loading…
1 task done
2
Prevent FASTA-to-JSONL conversion from erasing its source
#1758 opened Sep 21, 2026 by VishnuR23 Loading…
1 task done
4
Enforce subprocess timeouts while streaming stdout and stderr
#1757 opened Sep 21, 2026 by VishnuR23 Loading…
1 task done
2
Document Evo2 utilities and legacy conversion boundaries
#1756 opened Sep 21, 2026 by VishnuR23 Loading…
1 task done
2
Extract sequence padding from inference collation
#1755 opened Sep 21, 2026 by VishnuR23 Loading…
4 of 5 tasks
1
2
chore(deps): bump anyio from 4.9.0 to 4.14.2 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1754 opened Sep 19, 2026 by dependabot Bot Loading…
3
chore(deps): bump anyio from 4.12.1 to 4.14.2 in /interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1752 opened Sep 18, 2026 by dependabot Bot Loading…
2
chore(deps): bump soupsieve from 2.7 to 2.9 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1751 opened Sep 18, 2026 by dependabot Bot Loading…
2
Consolidate open dependabot dependency bumps
#1749 opened Sep 11, 2026 by pstjohn Collaborator Loading…
3 of 9 tasks
@pstjohn
3
Fix flaky CUDA init error in esm2_native_te DataLoader workers
#1743 opened Sep 8, 2026 by nipunsw1999 Loading…
3 of 9 tasks
1
2
Bump transformers from 4.51.3 to 5.10.1 in /models/geneformer dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1736 opened Sep 3, 2026 by dependabot Bot Loading…
2
Bump qs from 6.14.1 to 6.16.0 in /interpretability/sparse_autoencoders/recipes/esm2/protein_dashboard dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1734 opened Sep 2, 2026 by dependabot Bot Loading…
2
Bump nanoid from 3.3.11 to 3.3.18 in /interpretability/sparse_autoencoders/recipes/codonfm/codon_dashboard dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1733 opened Sep 2, 2026 by dependabot Bot Loading…
2
Bump browserslist from 4.28.1 to 4.28.8 in /interpretability/sparse_autoencoders/sae/src/sae/dashboard dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1731 opened Sep 1, 2026 by dependabot Bot Loading…
2
Bump nanoid from 3.3.11 to 3.3.18 in /interpretability/sparse_autoencoders/sae/src/sae/dashboard dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1730 opened Sep 1, 2026 by dependabot Bot Loading…
3
TE Recipes Acceleration Skill
#1727 opened Aug 31, 2026 by zoeyz101 Collaborator Loading…
4 of 8 tasks
35
Improved PhiX174 Phage Design Plausibility
#1722 opened Aug 28, 2026 by jstjohn Collaborator • Draft
3 of 9 tasks
3
Bump hydra-core from 1.3.2 to 1.3.4 in /interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1720 opened Aug 21, 2026 by dependabot Bot Loading…
2
Bump gitpython from 3.1.45 to 3.1.58 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1713 opened Aug 7, 2026 by dependabot Bot Loading…
2
Bump h2 from 4.3.0 to 4.4.1 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1712 opened Aug 7, 2026 by dependabot Bot Loading…
2
Bump cryptography from 42.0.8 to 50.0.0 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1709 opened Aug 5, 2026 by dependabot Bot Loading…
2
Bump gitpython from 3.1.46 to 3.1.57 in /interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1708 opened Aug 4, 2026 by dependabot Bot Loading…
2
Bump black from 25.1.0 to 26.3.1 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1706 opened Aug 4, 2026 by dependabot Bot Loading…
2
docs(esm2_native_te): add torch.compile troubleshooting note ciflow:skip Skip all CI tests for this PR
#1703 opened Jul 30, 2026 by melissa-sanabria Loading…
1 of 9 tasks
5
gpt2 SAE recipe: interactive feature-explorer dashboard
#1697 opened Jul 28, 2026 by polinabinder1 Contributor • Draft
2
ProTip! Type g i on any issue or pull request to go back to the issue listing page.