10 Commits

Include renames

Author	SHA1	Message	Date
dr. M.S. (Matthijs) Berends	08aa47842e	(v3.0.1.9152) Let a named colours_SIR without S, I or R use the default colours for these, which fixes the example of ggplot_sir() with colours = c(SI = "yellow"), let ggplot_sir() pass the facet as a value to facet_sir(), and make the test of the eucast_I default independent of the AMR_guideline option	2026-10-16 04:34:52 +02:00
dr. M.S. (Matthijs) Berends	43accd35d1	(v3.0.1.9151) Fix inconsistencies in the plotting functions and correct the translations of the interpretation categories ... Plotting: - Base colours and legends of interpreted MIC and disk values on the interpretation itself instead of matching colours - Fix SDD in autoplot() for disks, the colours of barplot() for SIR values, and barplot() for MICs ignoring language and expand - Match a named colours_SIR by name; let keep_operators = TRUE/FALSE in scale_*_mic() behave as "all"/"none" - Let a named values in scale_*_sir() replace the colours it names, warn in scale_x_sir(), and pass other arguments on - Let the default of eucast_I follow the guideline option, also for EUCAST before 2019 - Support unquoted column names in facet_sir() without evaluating them - Correct the documentation and examples Translations: - Add SDD, NS, WT and NWT, and correct S, I, R and NI in 18 languages - Sources of the terms for 'I': NAK via German laboratories (de), SZU national reference laboratory (cs), lex.dk (da), Karolinska University Hospital (sv), COESANT (es), Nordlab (fi), CA-SFM (fr); no by analogy with da and sv - Not verified against an official source: ar, bn, el, hi, id, ja, ko, pl, ro, ru, sw, tr, uk, ur, vi, zh Tests: - Let the grouped antibiogram test use English so it passes in other locales	2026-10-15 22:25:20 +02:00
Matthijs Berends	2c33297cf6	new eucast breakpoints parsing	2026-08-20 13:29:16 +01:00
dr. M.S. (Matthijs) Berends	40d7a971c3	(v2.1.1.9236) documentation	2025-04-12 11:46:42 +02:00
dr. M.S. (Matthijs) Berends	36fd99e1f4	(v2.1.1.9235) New website!	2025-04-08 15:54:30 +01:00
dr. M.S. (Matthijs) Berends	8deaf2c8eb	(v2.1.1.9224) skip tests on cran	2025-03-20 23:29:21 +01:00
dr. M.S. (Matthijs) Berends	58d7aa8790	(v2.1.1.9199) fix eucast	2025-03-14 13:43:22 +01:00
dr. M.S. (Matthijs) Berends	f7938289eb	(v2.1.1.9186) replace antibiotics with antimicrobials!	2025-03-07 20:43:26 +01:00
dr. M.S. (Matthijs) Berends	07efc292bc	(v2.1.1.9163) cleanup	2025-02-27 14:04:29 +01:00
dr. M.S. (Matthijs) Berends	bd2887bcd4	(v2.1.1.9146) new scale_*_sir() functions	2025-02-13 19:47:57 +01:00