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AMR
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60 Commits

Author SHA1 Message Date
dr. M.S. (Matthijs) Berends 4e96a56b6a (v2.1.1.9073) unit tests 2024-09-19 13:57:36 +02:00
dr. M.S. (Matthijs) Berends ddb23b6e73 (v2.1.1.9071) update veterinary SIR interpretation, add `only_fungi` 2024-09-19 11:44:56 +02:00
dr. M.S. (Matthijs) Berends 640888f408 (v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update 2024-07-16 14:53:17 +02:00
dr. M.S. (Matthijs) Berends 82585901a7 (v2.1.1.9061) animal host fix 2024-06-19 15:41:45 +02:00
dr. M.S. (Matthijs) Berends c67d003e9e (v2.1.1.9060) SDD results now in `as.sir()` 2024-06-19 15:08:23 +02:00
dr. M.S. (Matthijs) Berends 0c3d81f32e (v2.1.1.9059) documentation fix 2024-06-17 22:26:05 +02:00
dr. M.S. (Matthijs) Berends 1bc2e04e1c (v2.1.1.9058) fix hosts, add translations 2024-06-17 22:19:38 +02:00
dr. M.S. (Matthijs) Berends a4dc37a4e4 (v2.1.1.9057) fix for missing breakpoints 2024-06-17 16:52:12 +02:00
dr. M.S. (Matthijs) Berends d9e66fb118 (v2.1.1.9056) example fix 2024-06-17 14:52:18 +02:00
dr. M.S. (Matthijs) Berends 1e65b5a289 (v2.1.1.9055) example fix 2024-06-17 14:36:40 +02:00
dr. M.S. (Matthijs) Berends 13baf8d7be (v2.1.1.9054) fix examples 2024-06-17 13:52:02 +02:00
dr. M.S. (Matthijs) Berends 2dee1d71dc (v2.1.1.9053) add `verbose` to `as.sir()`, unit test fix 2024-06-17 10:38:45 +02:00
dr. M.S. (Matthijs) Berends 68f7795481 (v2.1.1.9052) unit test fix 2024-06-16 20:53:50 +02:00
dr. M.S. (Matthijs) Berends bdbf5198a2 (v2.1.1.9050) vctrs fix for `sir`, small documentation fixes 2024-06-15 15:33:49 +02:00
dr. M.S. (Matthijs) Berends 9bf7584d58 (v2.1.1.9049) new 2024 breakpoints, add `AMO`, set NI instead of N 2024-06-14 22:39:01 +02:00
dr. M.S. (Matthijs) Berends de17de1be9 (v2.1.1.9048) vctrs update for sir 2024-06-13 20:55:17 +02:00
dr. M.S. (Matthijs) Berends c753afcd76 (v2.1.1.9045) fix host in animal guidelines 2024-06-12 10:32:43 +02:00
dr. M.S. (Matthijs) Berends 31207952d3 (v2.1.1.9043) fix sir translation with as.double 2024-06-10 10:34:45 +02:00
dr. M.S. (Matthijs) Berends a3071cf58b (v2.1.1.9042) update translations and example isolates 2024-06-09 11:31:04 +02:00
dr. M.S. (Matthijs) Berends c5981cdeb3 fix unit test 2024-06-04 20:17:54 +02:00
dr. M.S. (Matthijs) Berends 7c1b564648 fix SIR interpretation for uti 2024-05-31 21:24:35 +02:00
dr. M.S. (Matthijs) Berends 60c6c21e45 fix SIR interpretation 2024-05-31 09:50:54 +02:00
dr. M.S. (Matthijs) Berends ba4dc20cf3 autoplot fix 2024-05-30 16:39:59 +02:00
dr. M.S. (Matthijs) Berends d4490c7f25 fix sorting of MICs, MIC autoplot titles 2024-05-30 15:50:17 +02:00
dr. M.S. (Matthijs) Berends c3ce1b551d rename `limit_mic_range()` to `rescale_mic()` 2024-05-24 15:07:41 +02:00
dr. M.S. (Matthijs) Berends d214f74e25 allow column name for `ab` in `as.sir()` 2024-05-20 21:29:13 +02:00
dr. M.S. (Matthijs) Berends fc269e667d unit test fix 2024-05-20 18:58:35 +02:00
dr. M.S. (Matthijs) Berends 08a27922a8 new SDD and N for `as.sir()` 2024-05-20 15:27:04 +02:00
dr. M.S. (Matthijs) Berends 94e9a4d99b update MIC implementation 2024-04-07 20:22:59 +02:00
dr. M.S. (Matthijs) Berends 0039cb05d6 update MIC comparisons 2024-04-05 16:44:43 +02:00
dr. M.S. (Matthijs) Berends b303662ec6 fix veterinary for R<4 2024-02-24 19:26:35 +01:00
dr. M.S. (Matthijs) Berends 7be4dabbc0 support veterinary MIC/disk translation 2024-02-24 15:16:52 +01:00
dr. M.S. (Matthijs) Berends c7461766ce Remove RSI from package, add extra MIC scale functions 2023-12-03 11:34:48 +01:00
dr. M.S. (Matthijs) Berends 7cd9ca274c add strep groups to ABCG 2023-07-12 11:41:25 +01:00
dr. M.S. (Matthijs) Berends 66eeeb4b88 cleanup 2023-07-11 14:29:40 +02:00
dr. M.S. (Matthijs) Berends 8df1cd8d97 interpretation fixes 2023-07-11 09:50:45 +02:00
dr. M.S. (Matthijs) Berends 1b499bf012 fixes 2023-07-10 17:02:28 +02:00
dr. M.S. (Matthijs) Berends a4e2e25e3f reftbl in plots, speedup for as.sir() and mo_validate 2023-07-10 16:43:46 +02:00
dr. M.S. (Matthijs) Berends 70c601ca11 breakpoints UTI interpretation fix 2023-07-10 13:41:52 +02:00
dr. M.S. (Matthijs) Berends acb534102b new species groups, updated clinical breakpoints 2023-07-08 17:30:05 +02:00
Dr. Matthijs Berends f065945d7b
Update clinical breakpoints and fix some `as.mo()` bugs (#117) 
* Updates clinical breakpoints EUCAST/CLSI 2023, fixes #102, fixes #112, fixes #113, fixes #114, fixes #115
* docs
* implement ecoffs
* unit tests
 2023-06-22 15:10:59 +02:00
dr. M.S. (Matthijs) Berends 9591688811 documentation update 2023-05-27 10:39:22 +02:00
dr. M.S. (Matthijs) Berends 0bcf55d3b6 improve `as.mo()` 2023-05-24 15:55:53 +02:00
dr. M.S. (Matthijs) Berends 80cfc503c2 check for 2.0 2023-03-12 13:02:37 +01:00
dr. M.S. (Matthijs) Berends 262598b8d7 support for old rsi arguments 2023-03-11 14:24:34 +01:00
dr. M.S. (Matthijs) Berends c2cfc5ef84 fix for `antibiogram()`, transform `WHONET` data set to `sir` 2023-02-22 15:40:05 +01:00
dr. M.S. (Matthijs) Berends dad25302f2 make `rsi` work in more cases, documentation update 2023-02-22 14:38:57 +01:00
dr. M.S. (Matthijs) Berends 8d902410f9 unit tests 2023-02-18 14:56:06 +01:00
dr. M.S. (Matthijs) Berends 45a9697c84 unit tests 2023-02-12 17:10:48 +01:00
dr. M.S. (Matthijs) Berends 68abb00c59 add include_screening to `as.sir()` 2023-02-12 15:09:54 +01:00