Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
active 2023-08-16 → 2026-07-28 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 1078 days from 2023-08-16 to 2026-07-28. Pushes: 832 total, peak 15 in a day. Pull requests: 43 total, peak 3 in a day. Issues: 372 total, peak 49 in a day. Comments: 846 total, peak 43 in a day. Stars: 113 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 |
|---|---|---|---|---|
| andrewprzh | 1.3K | 622 | 34 | 475 |
| aljpetri | 34 | 34 | 0 | 0 |
| rkpfeil | 32 | 29 | 3 | 0 |
| heidi-holappa | 29 | 29 | 0 | 0 |
| fmesena | 24 | 24 | 0 | 0 |
| jackfreeman88 | 22 | 14 | 3 | 5 |
| ReimKuos | 21 | 21 | 0 | 0 |
| github-actions[bot] | 20 | 20 | 0 | 0 |
| jamestwebber | 18 | 0 | 0 | 13 |
| sanyalab | 17 | 0 | 0 | 11 |
| francicco | 17 | 0 | 0 | 14 |
| arina-c | 16 | 16 | 0 | 0 |
| omarelgarwany | 16 | 0 | 0 | 9 |
| sparthib | 15 | 0 | 0 | 9 |
| cat-bug | 14 | 3 | 2 | 5 |
| biochristmas | 14 | 0 | 0 | 8 |
| dawangran | 13 | 0 | 0 | 6 |
| Qirongmao97 | 12 | 0 | 0 | 8 |
| zpliu1126 | 12 | 0 | 0 | 6 |
| dudududu12138 | 12 | 0 | 0 | 7 |
Recent activity
Latest issues, pull requests and releases
- Issue#192andrewprzh2026-07-28 10:26Add sample label to read_assignments.tsv/transcript_model_reads.tsv based on --labels?
- Issue comment#392solatar2026-05-17 06:03Fusion discovery
- Issue#387andrewprzh2026-04-17 11:51Running with Parse Biosciences single-cell long-read data using pre-called barcodes
- Issue comment#380ljh-98092026-04-15 10:42Question: Using IsoQuant after Iso-Seq preprocessing pipeline for bulk long-read RNA-seq
- Issue#384ExctOcean2026-04-11 04:01Best practices for multi-experiment isoform quantification and resolving barcode collisions in single-cell Nanopore datasets
- Issue comment#382andrewprzh2026-04-09 07:38Error: Detected 1 oom_kill event in StepId=537705.batch
- Issue#381mfurla2026-04-02 08:02Minimap2 configuration for direct RNA-seq
- Issue#380ljh-98092026-03-27 07:33Question: Using IsoQuant after Iso-Seq preprocessing pipeline for bulk long-read RNA-seq
- Pull request#378andrewprzh2026-03-21 14:40
- Issue#280andrewprzh2026-03-20 18:22Scaling Isoquant
- Releaseandrewprzh2026-03-18 22:09IsoQuant 3.12.1
- Issue comment#374andrewprzh2026-03-11 17:37Remove '#' from feature_id in output headers
- Issue comment#372andrewprzh2026-03-10 11:14Potential adverse effect of small chromosome coverage limit
- Issue#369zhujack2026-02-06 15:23Error with running visualize.py
- Issue#365skkjy2026-02-03 02:07isoquant mulitple samples running
- Issue#365jeonjeyong2026-02-02 03:57isoquant mulitple samples running
- Pull request#364andrewprzh2026-01-22 11:29
- Issue comment#359andrewprzh2026-01-20 17:19Question regarding parallelisation in IsoQuant
- Pull request#362andrewprzh2026-01-17 10:04
- Issue comment#359andrewprzh2025-12-28 23:41Question regarding parallelisation in IsoQuant
- Issue comment#357sklages2025-12-28 23:14Q: best practices?
- Issue comment#357andrewprzh2025-12-28 22:53Q: best practices?
- Pull request#360andrewprzh2025-12-23 10:52
- Pull request#360andrewprzh2025-12-22 18:02
- Issue comment#357sklages2025-12-18 20:07Q: best practices?
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 113 stars here means stars gained during the window, not the repo's star count.