Commit Graph

958 Commits

Author SHA1 Message Date
dr. M.S. (Matthijs) Berends 7cda9e575b prepare for CRAN 2023-10-20 14:51:48 +02:00
dr. M.S. (Matthijs) Berends 7dc96794be fix rounding MICs on R-devel 2023-07-20 08:24:27 +02:00
dr. M.S. (Matthijs) Berends 7a4628b73f Added C. freundii complex and Y. pseudotuberculosis complex 2023-07-14 10:49:06 +02:00
dr. M.S. (Matthijs) Berends fd480d1a9a console hyperlink fix 2023-07-14 09:50:13 +02:00
dr. M.S. (Matthijs) Berends eff164ecb1 indicate unique identifiers 2023-07-12 21:26:32 +02:00
dr. M.S. (Matthijs) Berends ea2a4652e9 mouse-hover fixes 2023-07-12 15:27:43 +01:00
dr. M.S. (Matthijs) Berends e1b4f99f4f breakpoints fixes 2023-07-12 15:20:04 +01:00
dr. M.S. (Matthijs) Berends 0c46f61260 MO group fixes 2023-07-12 15:04:48 +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 dab20c09f6 unit test 2023-07-10 18:30:26 +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 3829311dd3 random() fix 2023-07-08 21:00:49 +02:00
dr. M.S. (Matthijs) Berends acb534102b new species groups, updated clinical breakpoints 2023-07-08 17:30:05 +02:00
dr. M.S. (Matthijs) Berends 2d97cca6d9 fix `reference_df` endless loop 2023-06-26 13:52:02 +02:00
dr. M.S. (Matthijs) Berends 1d9ee39cc7 fix for mo codes 2023-06-22 15:24:18 +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 e1966503ee unit testing R4.3 2023-05-26 20:37:00 +02:00
dr. M.S. (Matthijs) Berends 766db4e21f as.mo fix 2023-05-26 19:20:21 +02:00
dr. M.S. (Matthijs) Berends c6135d2082 updated microorganism codes 2023-05-26 16:10:01 +02:00
dr. M.S. (Matthijs) Berends 0bcf55d3b6 improve `as.mo()` 2023-05-24 15:55:53 +02:00
dr. M.S. (Matthijs) Berends 3018fb87a9 `icu_exclude` in `first_isolate()`, fixes #110 2023-05-17 22:12:10 +02:00
dr. M.S. (Matthijs) Berends 91fa73dedf add oxygen tolerance 2023-05-11 21:56:27 +02:00
dr. M.S. (Matthijs) Berends bf08d136a0 fix coercing `NA` to custom codes, fixes #107 2023-05-08 13:04:18 +02:00
dr. M.S. (Matthijs) Berends 9148a2dcf4 fix `mo_rank()` for 'unknown' MOs 2023-04-20 15:20:41 +02:00
dr. M.S. (Matthijs) Berends cabffb22fd anaerobic codes 2023-04-17 11:26:19 +02:00
dr. M.S. (Matthijs) Berends 1a02d302d4 Fix translatable strings 2023-04-15 09:32:13 +02:00
dr. M.S. (Matthijs) Berends ed70f95380 Fix clinical breakpoints 2023-04-14 23:14:34 +02:00
dr. M.S. (Matthijs) Berends 147f9112e9 Fix some WHONET codes 2023-04-14 11:12:26 +02:00
dr. M.S. (Matthijs) Berends 549790c2a6 website 2023-03-20 21:59:50 +01:00
dr. M.S. (Matthijs) Berends c28cfa3a77 fix documentation 2023-03-16 08:55:37 +01:00
dr. M.S. (Matthijs) Berends dd7cc86485 help page %like% 2023-03-14 19:49:50 +01:00
dr. M.S. (Matthijs) Berends 80cfc503c2 check for 2.0 2023-03-12 13:02:37 +01:00
dr. M.S. (Matthijs) Berends 9179e98e12 patient ID in first isolate 2023-03-11 17:13:19 +01:00
dr. M.S. (Matthijs) Berends 7ad8635994 documentation for 'data.table' AB selectors 2023-03-11 16:54:02 +01:00
dr. M.S. (Matthijs) Berends 45e840c02f update NEWS 2023-03-11 14:43:31 +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 4416394e10 website update 2023-02-26 21:26:58 +01:00
dr. M.S. (Matthijs) Berends 1d3d7d40bc get episode unit tests 2023-02-24 19:54:56 +01:00
dr. M.S. (Matthijs) Berends 2c5a9bb622 new relative episode determination in `get_episode()`, fix for plotting disk/MIC values 2023-02-24 17:06:30 +01:00
dr. M.S. (Matthijs) Berends 92029c9e95 remove note 2023-02-24 10:31:36 +01:00
dr. M.S. (Matthijs) Berends 049baf0a71 fix for antibiograms on R < 3.5 2023-02-24 09:43:10 +01:00
dr. M.S. (Matthijs) Berends e70f2cd32c knitr format 2023-02-23 16:27:40 +01:00
dr. M.S. (Matthijs) Berends a84101db08 N for only 1 AB in 2023-02-22 16:26:13 +01:00
dr. M.S. (Matthijs) Berends 551aaf6517 auto-remove missing ABs in `antibiogram()` 2023-02-22 16:00:52 +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