Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
active 2023-08-23 → 2026-06-15 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 1028 days from 2023-08-23 to 2026-06-15. Pushes: 32 total, peak 12 in a day. Pull requests: 8 total, peak 2 in a day. Issues: 46 total, peak 3 in a day. Comments: 54 total, peak 4 in a day. Stars: 71 total, peak 2 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 |
|---|---|---|---|---|
| kpclifton | 33 | 15 | 4 | 10 |
| JEFworks | 13 | 5 | 0 | 8 |
| github-actions[bot] | 12 | 12 | 0 | 0 |
| mmganant | 11 | 0 | 0 | 8 |
| estellad | 9 | 0 | 0 | 4 |
| kulansam | 4 | 0 | 0 | 3 |
| ebolotin02 | 4 | 0 | 0 | 2 |
| pr4deepr | 4 | 0 | 0 | 2 |
| Nick-Eagles | 4 | 0 | 0 | 2 |
| Acaro12 | 3 | 0 | 0 | 1 |
| andrewjkwok | 3 | 0 | 0 | 1 |
| racng | 3 | 0 | 0 | 1 |
| pakiessling | 3 | 0 | 0 | 1 |
| OMIC-coding | 2 | 0 | 0 | 1 |
| common-chenlab | 2 | 0 | 0 | 1 |
| Albert-biorem | 2 | 0 | 1 | 0 |
| grst | 2 | 0 | 0 | 1 |
| JRS92 | 2 | 0 | 0 | 1 |
| DruncBread | 2 | 0 | 0 | 1 |
| lhl1-bit | 2 | 0 | 2 | 0 |
Recent activity
Latest issues, pull requests and releases
- Issue#56Heime-Jorgen2026-06-15 23:41K-Lean: machine-verified contracts for spatial transcriptomics alignment
- Issue#53rahmaqadeer2025-05-30 12:49CODEX and Visium Alignment
- Issue comment#50L1feiyu2025-05-23 01:34Visium vs Visium alignment - LDDMM graphs not shown
- Issue#52smk5g52025-04-23 22:06Can the images be from different patients?
- Pull request#51lhl1-bit2025-04-17 15:54
- Pull request#51lhl1-bit2025-04-16 19:49
- Issue#50vagm1109012025-04-02 08:17Visium vs Visium alignment
- Issue comment#39Paul-YPH2025-03-31 04:51LDDMM error: IndexError: index 1 is out of bounds for dimension 0 with size 1
- Pull request#49Albert-biorem2025-02-24 16:03
- Issue#48Albert-biorem2025-02-24 15:37Opt out polts and error in output
- Issue comment#45JEFworks2025-02-23 20:41Non-Reproducible Results in LDDMM While Aligning Xenium Datasets
- Issue#47albert2398252025-02-19 00:21Errors in final cells of Xenium H&E Alignment tutorial: NameError for `tpointsI` and AttributeError for `.to_csv()
- Issue#46Acaro122025-02-18 07:06Out of memory issue MERFISH/Visium tutorial
- Issue comment#46Acaro122025-02-18 07:06Out of memory issue MERFISH/Visium tutorial
- Issue#46Acaro122025-02-17 10:42Out of memory issue MERFISH/Visium tutorial
- Issue#45qu-bit12025-02-13 22:16Non-Reproducible Results in LDDMM While Aligning Xenium Datasets
- Issue#43DruncBread2025-02-09 05:29Parameters
- Issue comment#19DruncBread2025-02-09 05:16How to choose parameters?
- Issue#42racng2025-01-18 01:00GPU memory occupied after transformation
- Issue comment#41JRS922025-01-17 00:20Setting scale parameters
- Issue comment#41mmganant2025-01-16 19:31Setting scale parameters
- Issue comment#40mmganant2025-01-16 19:28Scaling fitted transform
- Issue comment#37mmganant2025-01-16 19:20How can I map my entire mouse brain MERFISH section to the Allen Brain Atlas and annotate the brain regions?
- Issue comment#33mmganant2025-01-16 19:12Sagittal section registration to allen brain atlas
- Issue#29mmganant2025-01-16 19:10Extracting coordinates after initial affine transformation only
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 71 stars here means stars gained during the window, not the repo's star count.