Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many other features.
active 2024-11-30 → 2026-04-17 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 504 days from 2024-11-30 to 2026-04-17. Pushes: 120 total, peak 7 in a day. Pull requests: 4 total, peak 2 in a day. Issues: 10 total, peak 1 in a day. Comments: 22 total, peak 4 in a day. Stars: 38 total, peak 6 in a day.
- Pushes
- Pull requests
- Issues
- Comments
- Stars
Stars, PRs, issues and forks are under-captured in the later part of this window. GH Archive progressively stopped capturing non-push events during 2026 — −95% or worse by the end of the window. Every series here except Pushes fades for that reason, so a decline above reflects the archive, not this repository. Pushes stay reliable throughout, so read them, and the contributor counts derived from them, as the real signal. Data health has the measurements.
Top contributors
Pushes, PRs, issues, reviews and comments — stars and forks excluded, so this is contribution rather than popularity
| Contributor | Contributions | Pushes | PRs | Comments |
|---|---|---|---|---|
| quentinblampey | 128 | 113 | 4 | 7 |
| rvitancol | 6 | 0 | 0 | 5 |
| KunHHE | 4 | 0 | 0 | 1 |
| lidanwu | 3 | 0 | 0 | 2 |
| alihamraoui | 3 | 3 | 0 | 0 |
| eveilyeverafter | 2 | 0 | 0 | 1 |
| shobhitagrawal1 | 1 | 0 | 0 | 1 |
| liangxs7015 | 1 | 0 | 0 | 1 |
| leohermet1 | 1 | 0 | 0 | 1 |
| victormanna | 1 | 0 | 0 | 1 |
| WangLightning | 1 | 0 | 0 | 1 |
| github-actions[bot] | 1 | 1 | 0 | 0 |
| ConstensouxAlexis | 1 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue#42quentinblampey2026-03-13 09:40[Feature] New model with pre-computed foundation embedding
- Issue#37quentinblampey2026-01-15 09:13[Bug]Error in running novae for backed read anndata
- Releasequentinblampey2026-01-15 08:58v1.0.2
- Issue comment#38quentinblampey2026-01-15 08:58[Bug] Changing sopa._constants to sopa.constants
- Pull request#39quentinblampey2026-01-15 08:40
- Issue comment#37quentinblampey2026-01-14 08:36[Bug]Error in running novae for backed read anndata
- Issue#32rvitancol2026-01-13 20:58openBLAS warning and segmentation fault issue
- Issue comment#32rvitancol2026-01-13 20:58openBLAS warning and segmentation fault issue
- Issue comment#35liangxs70152026-01-06 15:51Input and preprocess of novae.Novae for re-training a new model and cluetering evaluation
- Issue comment#34WangLightning2026-01-04 12:31Kernel crash after compute_representation
- Issue comment#32rvitancol2025-12-18 16:14openBLAS warning and segmentation fault issue
- Issue comment#34shobhitagrawal12025-12-16 12:02Kernel crash after compute_representation
- Issue comment#33leohermet12025-12-11 11:27Stochasticity between runs on the same slide
- Issue comment#28rvitancol2025-12-10 18:12Support for anndata view (backed='r')
- Issue comment#23quentinblampey2025-12-10 18:09save and reload novae models
- Issue comment#32quentinblampey2025-12-10 08:11openBLAS warning and segmentation fault issue
- Issue comment#32rvitancol2025-12-10 00:57openBLAS warning and segmentation fault issue
- Issue comment#28quentinblampey2025-11-12 15:12Support for anndata view (backed='r')
- Issue comment#28rvitancol2025-11-11 23:29Support for anndata view (backed='r')
- Issue#29quentinblampey2025-10-28 11:47[Feature] Investigate other gene embeddings
- Issue#26KunHHE2025-10-01 20:38for visium HD data create/train model?
- Pull request#25quentinblampey2025-10-01 12:32
- Issue comment#12KunHHE2025-09-30 15:19parameters on novae.utils.spatial_neighbors
- Issue#4quentinblampey2025-08-11 14:09[Bug] >99% cells annotated as NaN
- Releasequentinblampey2025-08-09 13:00v1.0.0
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 38 stars here means stars gained during the window, not the repo's star count.