The AMRgen package provides tools for interpreting antimicrobial resistance (AMR) genes, integrating genomic data with phenotypic antimicrobial susceptibility testing (AST) data, and calculating genotype-phenotype associations.
active 2025-06-09 → 2026-05-22 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 348 days from 2025-06-09 to 2026-05-22. Pushes: 193 total, peak 16 in a day. Pull requests: 10 total, peak 2 in a day. Issues: 9 total, peak 2 in a day. Comments: 9 total, peak 2 in a day. Stars: 3 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 |
|---|---|---|---|---|
| katholt | 112 | 97 | 1 | 6 |
| github-actions[bot] | 78 | 78 | 0 | 0 |
| msberends | 14 | 14 | 0 | 0 |
| efosternyarko | 3 | 0 | 2 | 1 |
| DorottyaNagy96 | 3 | 0 | 1 | 1 |
| karatsang | 3 | 0 | 3 | 0 |
| jhawkey | 2 | 2 | 0 | 0 |
| Copilot | 2 | 2 | 0 | 0 |
| evolarjun | 2 | 0 | 1 | 1 |
| zadyson | 1 | 0 | 1 | 0 |
| natacha-couto | 1 | 0 | 1 | 0 |
Recent activity
Latest issues, pull requests and releases
- Pull request#102karatsang2026-03-22 18:44
- Issue#92katholt2026-03-18 17:58check_binary_matrix fails if no 'mic' column
- Issue#84katholt2026-03-18 07:56bug: process_input() reads .txt files as TSV regardless of actual delimiter
- Pull request#89DorottyaNagy962026-03-17 17:23
- Pull request#77karatsang2026-03-12 14:22
- Pull request#74karatsang2026-03-09 17:53
- Pull request#68efosternyarko2026-03-06 15:54
- Issue comment#68katholt2026-03-04 08:33Add import_phoenix_ast() for BD Phoenix instrument AST data
- Issue comment#64DorottyaNagy962026-03-03 17:23error with download_ebi() function
- Pull request#65katholt2026-02-28 17:59
- Issue#62katholt2026-02-28 11:49export_ast producing 'laboratory_typing_method' column with invalid values
- Issue comment#66efosternyarko2026-02-28 10:51Fix #62 and #63: export method mapping and Sensititre import
- Pull request#66efosternyarko2026-02-28 10:34
- Issue comment#61katholt2026-02-28 09:58Make file argument optional in export functions (issue #22)
- Issue#62DorottyaNagy962026-02-27 13:51export_ast producing 'laboratory_typing_method' column with invalid values
- Issue comment#45katholt2026-02-13 11:46update functions to expect ecoff columns as 'sir' with NWT/WT instead of R/S
- Pull request#54natacha-couto2026-02-13 11:43
- Pull request#52evolarjun2026-02-12 14:21
- Issue comment#48katholt2026-02-11 12:58add option to order plots by PPV value
- Issue#48katholt2026-02-11 11:49add option to order plots by PPV value
- Pull request#47zadyson2026-02-11 00:11
- Issue#22katholt2026-02-10 09:08export pheno data to NCBI antibiogram
- Issue#44katholt2026-02-08 20:29download_ebi() - specifying multiple antibiotics
- Issue#36katholt2026-01-28 14:38colour options
- Issue comment#1katholt2025-12-26 09:56NCBI AST parser
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 3 stars here means stars gained during the window, not the repo's star count.