Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu
active 2024-05-13 → 2026-05-06 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 724 days from 2024-05-13 to 2026-05-06. Pushes: 68 total, peak 10 in a day. Pull requests: 3 total, peak 1 in a day. Issues: 25 total, peak 3 in a day. Comments: 79 total, peak 5 in a day. Stars: 16 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 |
|---|---|---|---|---|
| lingminhao | 43 | 11 | 2 | 29 |
| andredsim | 29 | 16 | 0 | 12 |
| ch99l | 24 | 21 | 0 | 1 |
| cying111 | 21 | 20 | 0 | 0 |
| ashokpatowary | 11 | 0 | 0 | 9 |
| ljwharbers | 8 | 0 | 0 | 7 |
| xyz202310 | 8 | 0 | 0 | 4 |
| JoBerger99 | 7 | 0 | 0 | 3 |
| TinyTasy | 6 | 0 | 0 | 5 |
| sparthib | 4 | 0 | 0 | 1 |
| cjy-23 | 4 | 0 | 0 | 2 |
| mcortes-lopez | 3 | 0 | 0 | 2 |
| 18parkky | 2 | 0 | 0 | 1 |
| ClareRobin | 2 | 0 | 0 | 1 |
| nic-ong | 1 | 0 | 0 | 0 |
| Choeun-fran | 1 | 0 | 0 | 0 |
| suegrimes | 1 | 0 | 0 | 0 |
| hafiz-ismail | 1 | 0 | 0 | 1 |
| camelest | 1 | 0 | 0 | 0 |
| alexyfyf | 1 | 0 | 1 | 0 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#22xyz2023102025-11-16 12:49Hello, how long does it take to process spatial transcriptome data with bambu-singlecell-spatial?
- Issue comment#22xyz2023102025-11-06 07:03Hello, how long does it take to process spatial transcriptome data with bambu-singlecell-spatial?
- Issue comment#23lingminhao2025-11-03 05:15BiocParallel Errors on HPC
- Issue comment#22lingminhao2025-11-03 05:13Hello, how long does it take to process spatial transcriptome data with bambu-singlecell-spatial?
- Issue#20xyz2023102025-10-07 08:44Could you please upload the Singularity image
- Issue comment#20xyz2023102025-10-07 07:39Could you please upload the Singularity image
- Pull request#21lingminhao2025-10-07 06:17
- Issue comment#20lingminhao2025-10-06 05:16Could you please upload the Singularity image
- Issue#20xyz2023102025-10-02 07:39Could you please upload the Singularity image
- Issue comment#1718parkky2025-09-25 07:43Considerations for input BAM files
- Issue comment#17lingminhao2025-09-25 02:35Considerations for input BAM files
- Issue comment#19lingminhao2025-09-25 02:27Nextflow error specifying revision
- Issue#1718parkky2025-08-19 08:17Considerations for input BAM files
- Issue#16Choeun-fran2025-08-06 07:56Bambu cannot identify parameters
- Pull request#15lingminhao2025-06-23 02:39
- Issue#14suegrimes2025-06-10 17:46bambuEM error: object of type 'S4' is not subsettable
- Issue#2lingminhao2025-06-05 08:20Errors during isoform quantification
- Issue comment#13cjy-232025-05-19 05:53Error executing process > 'flexiplex (2)' --genome: command not found --ncore: command not found
- Issue#13cjy-232025-05-19 05:53Error executing process > 'flexiplex (2)' --genome: command not found --ncore: command not found
- Issue comment#13cjy-232025-05-17 07:14Error executing process > 'flexiplex (2)' --genome: command not found --ncore: command not found
- Issue comment#13lingminhao2025-05-16 18:14Error executing process > 'flexiplex (2)' --genome: command not found --ncore: command not found
- Issue#13cjy-232025-05-15 01:09Error executing process > 'flexiplex (2)' --genome: command not found --ncore: command not found
- Issue comment#12bpuzek2025-04-18 11:07ERROR: Unknown option: --no-home
- Issue comment#12lingminhao2025-04-17 03:07ERROR: Unknown option: --no-home
- Issue comment#12TinyTasy2025-04-09 13:35ERROR: Unknown option: --no-home
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 16 stars here means stars gained during the window, not the repo's star count.