Best-practice analysis pipeline for mapping reads to a (large) collections of genomes
active 2024-03-20 → 2026-08-11 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 875 days from 2024-03-20 to 2026-08-11. Pushes: 110 total, peak 10 in a day. Pull requests: 135 total, peak 6 in a day. Issues: 60 total, peak 6 in a day. Comments: 315 total, peak 48 in a day. Stars: 9 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 |
|---|---|---|---|---|
| erikrikarddaniel | 329 | 32 | 39 | 138 |
| danilodileo | 267 | 67 | 76 | 59 |
| jfy133 | 62 | 1 | 2 | 48 |
| github-actions[bot] | 56 | 0 | 0 | 56 |
| nf-core-bot | 32 | 9 | 16 | 7 |
| d4straub | 5 | 0 | 0 | 0 |
| mariaTsontaki | 4 | 1 | 0 | 2 |
| mashehu | 3 | 0 | 0 | 1 |
| geweaa | 2 | 0 | 0 | 0 |
| famosab | 2 | 0 | 0 | 2 |
| johnne | 1 | 0 | 0 | 0 |
| fabianegli | 1 | 0 | 1 | 0 |
| Laurenz0908 | 1 | 0 | 1 | 0 |
| Daniel-VM | 1 | 0 | 0 | 1 |
| amizeranschi | 1 | 0 | 0 | 0 |
| FriederikeHanssen | 1 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#217Daniel-VM2026-07-30 09:06Add Bakta as an alternative to Prokka for genome annotation
- Issue comment#196danilodileo2026-05-27 05:39The `--indexes` param doesn't behave as expected + `params.*` in `PIPELINE_INITIALIZATION`
- Pull request#193danilodileo2026-04-20 02:48
- Issue#182erikrikarddaniel2026-01-16 17:04Make sure `nextflow lint` passes
- Issue comment#181erikrikarddaniel2026-01-14 16:23Fix/bakta gff compatibility
- Pull request#181Laurenz09082026-01-14 14:14
- Issue#180erikrikarddaniel2025-12-16 08:40Software versions in CHANGELOG.md
- Issue#179erikrikarddaniel2025-12-10 22:22Move genome accno into count tables
- Issue#176erikrikarddaniel2025-12-10 07:16Add idxstats and flagstats
- Releasedanilodileo2025-11-28 16:11magmap v1.0.0
- Pull request#173nf-core-bot2025-11-20 09:31
- Issue comment#172erikrikarddaniel2025-11-12 20:19sourmash gather patch
- Pull request#172danilodileo2025-11-12 16:03
- Issue comment#169mariaTsontaki2025-11-04 07:25Add content tests
- Issue#167erikrikarddaniel2025-10-31 09:58Make `PROKKAGFF2TSV` more efficient
- Pull request#168erikrikarddaniel2025-10-29 16:19
- Issue#165erikrikarddaniel2025-10-28 16:55Generate missing snapshots for full-test
- Issue comment#165erikrikarddaniel2025-10-28 16:55Generate missing snapshots for full-test
- Issue#165danilodileo2025-10-24 12:15Generate missing snapshots for full-test
- Issue#164danilodileo2025-10-22 08:54Add eggnog-mapper and KOfamscan
- Issue#164danilodileo2025-10-22 08:54Add eggnog-mapper and KOfamscan
- Issue comment#163erikrikarddaniel2025-10-21 10:17Fix review comments
- Issue comment#163erikrikarddaniel2025-10-21 10:03Fix review comments
- Pull request#163erikrikarddaniel2025-10-21 09:39
- Issue comment#162erikrikarddaniel2025-10-21 06:41Update snapshots
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 9 stars here means stars gained during the window, not the repo's star count.