Fast DNA search and [host] depletion using minimizers
active 2025-03-14 → 2026-08-11 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 516 days from 2025-03-14 to 2026-08-11. Pushes: 125 total, peak 7 in a day. Pull requests: 33 total, peak 6 in a day. Issues: 47 total, peak 4 in a day. Comments: 71 total, peak 7 in a day. Stars: 59 total, peak 7 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 |
|---|---|---|---|---|
| bede | 220 | 124 | 15 | 50 |
| RagnarGrootKoerkamp | 28 | 1 | 16 | 10 |
| funnell | 5 | 0 | 0 | 2 |
| SantaMcCloud | 3 | 0 | 0 | 1 |
| mauricebarrett | 3 | 0 | 0 | 3 |
| Ben7124 | 2 | 0 | 0 | 0 |
| pmenzel | 2 | 0 | 0 | 1 |
| tmaklin | 2 | 0 | 1 | 1 |
| ASLeonard | 2 | 0 | 0 | 1 |
| naturepoker | 2 | 0 | 0 | 0 |
| imartayan | 2 | 0 | 1 | 0 |
| fanninpm | 1 | 0 | 0 | 0 |
| nrminor | 1 | 0 | 0 | 1 |
| dutchscientist | 1 | 0 | 0 | 0 |
| arpit20328 | 1 | 0 | 0 | 0 |
| shenwei356 | 1 | 0 | 0 | 0 |
Recent activity
Latest issues, pull requests and releases
- Releasegithub-actions[bot]2026-08-11 13:370.16.0
- Issue comment#84nrminor2026-04-21 19:52Add in paired read handling during filter for interleaved inputs
- Releasegithub-actions[bot]2026-03-13 16:140.15.0
- Issue comment#79bede2026-02-01 15:42[suggestion] Add support of process substitution or named pipe
- Issue#79shenwei3562026-02-01 04:54[suggestion] Add support of process substitution or named pipe
- Issue comment#77bede2025-12-22 20:39`panhuman-2` index based on HPRC release 2
- Issue comment#77pmenzel2025-12-22 19:50`panhuman-2` index based on HPRC release 2
- Issue#77bede2025-12-08 00:15`panhuman-2` index based on HPRC release 2
- Issue#76fanninpm2025-11-24 20:51Add option to redact/mask human reads
- Issue#74bede2025-11-24 18:22Deposit `panmouse-1` to Zenodo, all indexes going forwards
- Issue#74bede2025-11-21 20:26Deposit `panmouse-1` to Zenodo, all indexes going forwards
- Issue#74bede2025-11-21 20:26Deposit `panmouse-1` to Zenodo, all indexes going forwards
- Issue comment#71bede2025-11-21 14:21Make bioconda binaries more portable
- Releasebede2025-11-21 14:170.13.2
- Pull request#72RagnarGrootKoerkamp2025-11-21 10:56
- Issue#70SantaMcCloud2025-11-14 11:14Question about Index version
- Issue comment#70SantaMcCloud2025-11-14 11:14Question about Index version
- Issue#70SantaMcCloud2025-11-14 10:32Question about Index version
- Issue comment#66RagnarGrootKoerkamp2025-10-25 12:30Direct installation throughs errors in Linux and MacOS
- Issue#44bede2025-10-24 09:23Add `deacon index intersect`
- Issue#46bede2025-10-24 09:23fail more gracefully on empty input files
- Issue#65RagnarGrootKoerkamp2025-10-23 22:21cargo install fails on AMD processor, setting RUSTFLAGS fixes the issue
- Issue comment#63bede2025-10-15 23:43Update packed-seq and simd-mini and avoid internal allocations
- Pull request#64RagnarGrootKoerkamp2025-10-15 22:43
- Issue comment#63bede2025-10-15 19:23Update packed-seq and simd-mini and avoid internal allocations
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 59 stars here means stars gained during the window, not the repo's star count.