Knight Lab internal Metagenomic processing scripts for demultiplexing, QC and host removal
active 2023-09-05 → 2025-03-06 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 549 days from 2023-09-05 to 2025-03-06. Pushes: 48 total, peak 3 in a day. Pull requests: 101 total, peak 4 in a day. Issues: 31 total, peak 14 in a day. Comments: 614 total, peak 36 in a day. Stars: 1 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 |
|---|---|---|---|---|
| charles-cowart | 515 | 9 | 57 | 248 |
| antgonza | 274 | 34 | 41 | 117 |
| wasade | 236 | 5 | 2 | 155 |
| coveralls | 62 | 0 | 0 | 62 |
| AmandaBirmingham | 48 | 0 | 1 | 25 |
| lucaspatel | 5 | 0 | 0 | 3 |
| rob-knight | 3 | 0 | 0 | 3 |
| mmbryant23 | 1 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Pull request#169antgonza2025-03-06 23:10
- Issue comment#169coveralls2025-03-05 22:15WIP: Fixes after deploy 03.25
- Pull request#169antgonza2025-03-05 22:08
- Pull request#148antgonza2025-03-03 16:10
- Issue comment#114antgonza2025-03-03 16:09shm and se operation changes
- Issue comment#109antgonza2025-03-03 16:09Fixes issue with fastq.gz files having _I1_ etc.
- Pull request#109antgonza2025-03-03 16:09
- Pull request#108antgonza2025-03-03 16:08
- Pull request#163antgonza2025-03-03 16:02
- Issue#168charles-cowart2025-02-25 02:59Looks almost identical to the prior job script except output location, why not parameterize and pass in on submission with --export?
- Issue#167charles-cowart2025-02-25 02:58Isn't this effectively a noop?
- Issue#166charles-cowart2025-02-25 02:23Revisit legacy fastq file search code
- Issue comment#163wasade2025-02-22 16:13Omnibus PR
- Issue comment#163charles-cowart2025-02-22 06:04Omnibus PR
- Issue comment#163charles-cowart2025-02-22 04:27WIP: Omnibus PR
- Issue comment#163antgonza2025-02-22 04:12WIP: Omnibus PR
- Pull request#162charles-cowart2025-02-21 23:05
- Issue comment#163coveralls2025-02-21 22:36WIP: Production hotfixes
- Issue comment#164charles-cowart2025-02-21 20:13hotfix
- Pull request#164charles-cowart2025-02-21 20:13
- Issue comment#165charles-cowart2025-02-21 19:13WIP: All seqpro-related code clipped from metapool.
- Pull request#165charles-cowart2025-02-21 19:13
- Issue comment#165coveralls2025-02-15 04:43WIP: All seqpro-related code clipped from metapool.
- Pull request#165charles-cowart2025-02-15 04:36
- Pull request#164charles-cowart2025-02-12 23:16
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 1 stars here means stars gained during the window, not the repo's star count.