a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challenge of accurately segmenting individual cells in complex imaging datasets, leveraging a unique approach based on graph neural networks (GNNs).
active 2024-09-12 → 2026-05-25 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 621 days from 2024-09-12 to 2026-05-25. Pushes: 292 total, peak 26 in a day. Pull requests: 79 total, peak 11 in a day. Issues: 111 total, peak 6 in a day. Comments: 217 total, peak 31 in a day. Stars: 80 total, peak 14 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 |
|---|---|---|---|---|
| EliHei2 | 331 | 150 | 28 | 100 |
| github-actions[bot] | 97 | 97 | 0 | 0 |
| daniel-unyi-42 | 73 | 17 | 38 | 15 |
| LucaMarconato | 49 | 5 | 5 | 22 |
| quail768 | 26 | 0 | 0 | 14 |
| pre-commit-ci[bot] | 22 | 19 | 3 | 0 |
| OneHitKO | 16 | 0 | 0 | 7 |
| marzaidi | 15 | 0 | 0 | 4 |
| andrewmoorman | 14 | 2 | 2 | 7 |
| senbaikang | 10 | 0 | 1 | 8 |
| pakiessling | 10 | 0 | 0 | 6 |
| MiracleEaTu | 9 | 0 | 0 | 7 |
| jpark27 | 6 | 0 | 0 | 4 |
| mossishahi | 5 | 0 | 0 | 2 |
| annachernysheva179 | 5 | 0 | 0 | 3 |
| LouisK92 | 4 | 0 | 0 | 3 |
| rukhovich | 3 | 2 | 1 | 0 |
| christophechu | 3 | 0 | 0 | 2 |
| joaolsf | 2 | 0 | 0 | 1 |
| Zach-Sten | 2 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#126EliHei22026-03-07 10:26CUDA error when running predictions without GPU
- Issue comment#130EliHei22026-03-07 10:25High memory and runtime requirements when adding scRNA-seq data
- Issue comment#134EliHei22026-03-07 10:25Issues with Exporting to Xenium Explorer
- Issue comment#127dertrotl2026-01-15 11:45Error during segment -- cudaErrorIllegalAddress
- Issue comment#129EliHei22025-09-09 06:46[BUG] Outdated tutorial for XeniumSample segmentation
- Issue#129EliHei22025-09-09 06:46[BUG] Outdated tutorial for XeniumSample segmentation
- Issue comment#130EliHei22025-09-09 06:45High memory and runtime requirements when adding scRNA-seq data
- Issue comment#119HarryZhang12242025-09-05 17:39Error when running seg2explorer
- Issue comment#120EliHei22025-09-05 09:26[Error] Running seg2explorer
- Issue#130asmariyaz232025-08-28 15:52High memory and runtime requirements when adding scRNA-seq data
- Issue comment#129EliHei22025-08-25 10:00[BUG] Outdated tutorial for XeniumSample segmentation
- Pull request#128EliHei22025-08-18 14:58
- Issue comment#124EliHei22025-08-18 06:24Missed requirements
- Issue comment#126EliHei22025-08-08 07:51CUDA error when running predictions without GPU
- Issue comment#126LouisK922025-08-07 19:56CUDA error when running predictions without GPU
- Issue comment#126LouisK922025-08-07 11:27CUDA error when running predictions without GPU
- Issue comment#125EliHei22025-08-06 14:18Data sample save does not produce files
- Issue#126LouisK922025-08-06 14:16CUDA error when running predictions without GPU
- Issue comment#125LouisK922025-08-06 13:50Data sample save does not produce files
- Issue comment#123LucaMarconato2025-08-05 18:43Spatialdata and dask Comatibility
- Issue#124mossishahi2025-08-05 15:32Missed requirements
- Issue comment#120jpark272025-08-02 09:25[Error] Running seg2explorer
- Issue comment#120jpark272025-08-01 14:27[Error] Running seg2explorer
- Issue#119EliHei22025-07-31 14:02Error when running seg2explorer
- Issue#120EliHei22025-07-31 14:02[Error] Running seg2explorer
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 80 stars here means stars gained during the window, not the repo's star count.