pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
active 2023-08-15 → 2026-07-09 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 1060 days from 2023-08-15 to 2026-07-09. Pushes: 121 total, peak 10 in a day. Pull requests: 22 total, peak 2 in a day. Issues: 140 total, peak 4 in a day. Comments: 303 total, peak 7 in a day. Stars: 36 total, peak 1 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 |
|---|---|---|---|---|
| SeppeDeWinter | 140 | 64 | 15 | 54 |
| ghuls | 114 | 45 | 2 | 63 |
| TingTingShao | 42 | 0 | 0 | 24 |
| yojetsharma | 27 | 0 | 0 | 19 |
| Melody-cell | 18 | 0 | 0 | 9 |
| petukhovaaa | 15 | 0 | 0 | 13 |
| JulieDeMan | 11 | 5 | 0 | 6 |
| SITRR | 8 | 0 | 0 | 7 |
| ashleighthomas | 7 | 0 | 0 | 3 |
| camiel-m | 7 | 2 | 1 | 4 |
| GGboy-Zzz | 6 | 0 | 0 | 3 |
| jklvrt | 5 | 0 | 0 | 1 |
| w1973145618 | 5 | 0 | 0 | 2 |
| skoturan | 5 | 0 | 0 | 2 |
| cbiagii | 5 | 0 | 0 | 3 |
| massonix | 5 | 0 | 0 | 3 |
| Sebdumas | 5 | 0 | 0 | 4 |
| JinKyu-Cheong | 4 | 0 | 0 | 2 |
| adamklie | 4 | 0 | 0 | 2 |
| bitcometz | 4 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#210LongpanICR2026-03-29 22:16Bug report [BUG] - pycisTopic QC
- Issue comment#221ghuls2026-02-16 08:49`PanicException: called `Result::unwrap()` on an `Err` value: ParseIntError { kind: InvalidDigit }`
- Issue comment#214liangliangjin2026-02-05 08:56Bug report [BUG]: Unable to export region accessibility to loom TypeError: Object dtype dtype('O') has no native HDF5 equivalent
- Issue comment#106nvaulin2026-02-04 11:04Running pycisTopic on very large datasets [PERFORMANCE]
- Pull request#223SeppeDeWinter2026-02-03 12:00
- Issue comment#217nvaulin2026-02-02 21:27Bug report [BUG] export_pseudobulk using new cellranger-arc v2.1 fragment files
- Issue comment#217ghuls2026-01-30 15:00Bug report [BUG] export_pseudobulk using new cellranger-arc v2.1 fragment files
- Issue#219danli3492025-12-17 17:21`pycistopic` pyarrow.lib.ArrowTypeError: Expected bytes, got a 'int' object
- Issue#217mariefbourdon2025-12-12 15:29Bug report [BUG] export_pseudobulk using new cellranger-arc v2.1 fragment files
- Issue comment#210beihzb2025-12-04 02:49Bug report [BUG] - pycisTopic QC
- Issue comment#181jiangpuxuan2025-09-24 03:08run_umap error
- Issue comment#215ghuls2025-09-19 20:58Bug report [BUG] Tutorial throws pyarrow.lib.ArrowTypeError: Expected bytes, got a 'int' object
- Issue#215arne-cl2025-09-19 12:53Bug report [BUG] Tutorial throws pyarrow.lib.ArrowTypeError: Expected bytes, got a 'int' object
- Issue comment#214jjia12025-09-15 18:56Bug report [BUG]: Unable to export region accessibility to loom TypeError: Object dtype dtype('O') has no native HDF5 equivalent
- Issue comment#214jjia12025-09-15 18:03Bug report [BUG]: Unable to export region accessibility to loom TypeError: Object dtype dtype('O') has no native HDF5 equivalent
- Issue comment#214ghuls2025-09-15 12:38Bug report [BUG]: Unable to export region accessibility to loom TypeError: Object dtype dtype('O') has no native HDF5 equivalent
- Issue#214jjia12025-09-12 15:56Bug report [BUG]: Unable to export region accessibility to loom TypeError: Object dtype dtype('O') has no native HDF5 equivalent
- Issue comment#213ghuls2025-07-30 08:26Bug Report: OutOfMemoryError (“GC overhead limit exceeded”) when running topic modeling with Mallet
- Issue comment#213ghuls2025-07-28 10:20Bug Report: OutOfMemoryError (“GC overhead limit exceeded”) when running topic modeling with Mallet
- Issue#213teng-gao2025-07-25 21:23Bug report [BUG]
- Issue#212jjia12025-07-24 19:38Guidance on V3 branch
- Pull request#211SeppeDeWinter2025-07-15 11:01
- Pull request#211erceksi2025-07-15 10:34
- Issue comment#210ghuls2025-06-30 09:55Bug report [BUG] - pycisTopic QC
- Issue comment#210TheeJonas2025-06-26 09:46Bug report [BUG] - pycisTopic QC
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 36 stars here means stars gained during the window, not the repo's star count.