Precise host read removal
active 2023-08-18 → 2026-05-03 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 990 days from 2023-08-18 to 2026-05-03. Pushes: 120 total, peak 10 in a day. Pull requests: 2 total, peak 2 in a day. Issues: 72 total, peak 8 in a day. Comments: 126 total, peak 7 in a day. Stars: 76 total, peak 4 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 | 251 | 120 | 0 | 88 |
| bdklahn | 8 | 0 | 0 | 7 |
| arpit20328 | 7 | 0 | 0 | 4 |
| sterrettJD | 6 | 0 | 0 | 5 |
| jfy133 | 5 | 0 | 0 | 3 |
| Rohit-Satyam | 4 | 0 | 0 | 1 |
| ryanjameskennedy | 4 | 0 | 0 | 3 |
| microbemarsh | 4 | 0 | 0 | 2 |
| DrYoungOG | 3 | 0 | 0 | 2 |
| JDhillonEIT | 3 | 0 | 2 | 1 |
| charlesfoster | 3 | 0 | 0 | 2 |
| LilyAnderssonLee | 2 | 0 | 0 | 1 |
| chantisakee | 2 | 0 | 0 | 0 |
| naturepoker | 2 | 0 | 0 | 1 |
| xiaoli-dong | 2 | 0 | 0 | 1 |
| jannikseidelQBiC | 2 | 0 | 0 | 1 |
| Ackia | 2 | 0 | 0 | 1 |
| dterumalai | 2 | 0 | 0 | 1 |
| pvanheus | 2 | 0 | 0 | 1 |
| cslamo | 1 | 0 | 0 | 0 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#54cazzlewazzle892026-05-01 12:19(Optionally) show read counts to individual host sequences
- Issue#70bede2026-03-28 07:05Offer small test dataset for pipelines that wish to include hostile in CI testing
- Issue comment#70bede2026-03-27 23:28Offer small test dataset for pipelines that wish to include hostile in CI testing
- Issue comment#54bede2025-09-04 19:11(Optionally) show read counts to individual host sequences
- Issue comment#61bede2025-09-04 18:58Since -x map-ont is default minimap2 behaviour, remove to allow customisation through --aligner-args
- Issue comment#68bede2025-09-04 12:51Certain reference genome for masking step results in ValueError
- Issue comment#68naturepoker2025-09-04 11:42Certain reference genome for masking step results in ValueError
- Issue comment#68bede2025-09-04 11:27Certain reference genome for masking step results in ValueError
- Issue#68naturepoker2025-09-04 11:12Certain reference genome for masking step results in ValueError
- Issue comment#67bede2025-08-20 08:03Can Hostile work on BWA-MEM2 mode ?
- Issue#67arpit203282025-08-20 04:40Can Hostile work on BWA-MEM2 mode ?
- Issue comment#65bede2025-08-12 13:02Request: retain tags
- Issue#66arpit203282025-07-27 12:22Threads Usage not Upto the Mark
- Issue#65funnell2025-07-22 22:44Request: retain tags
- Issue comment#64bede2025-07-17 17:41Can hostile manage a large ref db efficiently?
- Issue#64cslamo2025-07-17 17:16Can hostile manage a large ref db efficiently?
- Issue comment#63xiaoli-dong2025-07-10 17:03Can Hostile Output Full FASTQ Headers for Medaka Compatibility?
- Issue comment#63bede2025-07-10 10:33Can Hostile Output Full FASTQ Headers for Medaka Compatibility?
- Issue comment#62bede2025-06-18 16:11`strict_kwonly` removed in defopt 7.0.0 causing CLI issues in `cli.py`
- Issue#62bede2025-06-18 16:11`strict_kwonly` removed in defopt 7.0.0 causing CLI issues in `cli.py`
- Releasebede2025-06-18 16:052.0.1
- Issue#62tnmquann2025-06-18 11:17`strict_kwonly` removed in defopt 7.0.0 causing CLI issues in `cli.py`
- Issue comment#56sterrettJD2025-04-18 19:59Metatranscriptome performance
- Issue comment#60bede2025-04-18 13:20Applying bowtie2 very sensitive local algorithm
- Issue comment#59bede2025-04-18 13:16Nicely handle corrupt Minimap2 indexes, build at fetch time?
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 76 stars here means stars gained during the window, not the repo's star count.