180 Commits

Author	SHA1	Message	Date
dr. M.S. (Matthijs) Berends	152db9d1b5	(v1.8.1.9002) fix for table() on MICs	2022-05-09 17:08:40 +02:00
dr. M.S. (Matthijs) Berends	641b88c814	website update	2022-03-27 09:37:55 +02:00
dr. M.S. (Matthijs) Berends	0fb9a1b194	prerelease 1.8.1	2022-03-14 16:43:15 +01:00
dr. M.S. (Matthijs) Berends	45e9546538	prerelease 1.8.1 ... Merge branch 'development' of https://github.com/msberends/AMR into development # Conflicts: # docs/articles/AMR.html # docs/articles/AMR_files/figure-html/disk_plots-1.png # docs/articles/AMR_files/figure-html/disk_plots_mo_ab-1.png # docs/articles/AMR_files/figure-html/mic_plots-1.png # docs/articles/AMR_files/figure-html/mic_plots-2.png # docs/articles/AMR_files/figure-html/mic_plots_mo_ab-1.png # docs/articles/AMR_files/figure-html/mic_plots_mo_ab-2.png # docs/articles/AMR_files/figure-html/plot 1-1.png # docs/articles/AMR_files/figure-html/plot 3-1.png # docs/articles/AMR_files/figure-html/plot 4-1.png # docs/articles/AMR_files/figure-html/plot 5-1.png # docs/articles/EUCAST.html # docs/articles/MDR.html # docs/articles/PCA.html # docs/articles/PCA_files/figure-html/unnamed-chunk-6-1.png # docs/articles/PCA_files/figure-html/unnamed-chunk-7-1.png # docs/articles/SPSS.html # docs/articles/WHONET.html # docs/articles/WHONET_files/figure-html/unnamed-chunk-7-1.png # docs/articles/benchmarks.html # docs/articles/benchmarks_files/figure-html/unnamed-chunk-4-1.png # docs/articles/datasets.html # docs/articles/resistance_predict.html # docs/articles/resistance_predict_files/figure-html/unnamed-chunk-4-1.png # docs/articles/resistance_predict_files/figure-html/unnamed-chunk-5-1.png # docs/articles/resistance_predict_files/figure-html/unnamed-chunk-5-2.png # docs/articles/resistance_predict_files/figure-html/unnamed-chunk-6-1.png # docs/articles/resistance_predict_files/figure-html/unnamed-chunk-7-1.png # docs/articles/welcome_to_AMR.html # docs/news/index.html # docs/pkgdown.yml # docs/reference/AMR-deprecated.html # docs/reference/AMR.html # docs/reference/WHOCC.html # docs/reference/WHONET.html # docs/reference/antibiotics.html # docs/reference/catalogue_of_life.html # docs/reference/catalogue_of_life_version.html # docs/reference/dosage.html # docs/reference/example_isolates.html # docs/reference/example_isolates_unclean.html # docs/reference/g.test.html # docs/reference/intrinsic_resistant.html # docs/reference/microorganisms.codes.html # docs/reference/microorganisms.html # docs/reference/microorganisms.old.html # docs/reference/rsi_translation.html	2022-03-14 16:37:37 +01:00
dr. M.S. (Matthijs) Berends	1b0983e382	(v1.8.1) prerelease 1.8.1	2022-03-14 16:36:10 +01:00
dr. M.S. (Matthijs) Berends	8c9feea087	website update	2022-03-12 19:53:29 +01:00
dr. M.S. (Matthijs) Berends	08d387b5ce	(v1.8.0.9005) as.rsi() fix	2022-03-10 19:33:25 +01:00
dr. M.S. (Matthijs) Berends	ad82bb4ce0	(v1.8.0.9004) MIC printing in tibbles	2022-03-03 21:11:02 +01:00
dr. M.S. (Matthijs) Berends	18e8525d10	(v1.8.0.9001) as.mo improvement, fixes #52	2022-02-26 21:58:23 +01:00
dr. M.S. (Matthijs) Berends	25cef46c59	(v1.8.0) prerelease 1.8.0	2021-12-23 18:56:28 +01:00
dr. M.S. (Matthijs) Berends	76dee66852	(v1.7.1.9074) as.mo() improvement, ASCII replacements for unit tests	2021-12-14 22:39:23 +01:00
dr. M.S. (Matthijs) Berends	578e7dfee9	(v1.7.1.9070) Better WHONET support	2021-12-13 10:18:28 +01:00
dr. M.S. (Matthijs) Berends	1e66a3daf3	(v1.7.1.9068) new logo, unit tests	2021-12-12 11:07:02 +01:00
dr. M.S. (Matthijs) Berends	56f1ce328a	(v1.7.1.9067) Support for Swedish and Russian	2021-12-12 09:42:03 +01:00
dr. M.S. (Matthijs) Berends	77ba4318ea	(v1.7.1.9064) eucast 3.3 for mdro(), major change to repeated calling	2021-12-11 13:41:31 +01:00
dr. M.S. (Matthijs) Berends	e18c49ed93	(v1.7.1.9063) not_intrinsic_resistant	2021-12-09 10:48:25 +01:00
dr. M.S. (Matthijs) Berends	e63defe324	(v1.7.1.9062) website update	2021-12-06 11:12:30 +01:00
dr. M.S. (Matthijs) Berends	7965468ccd	(v1.7.1.9058) vars selection for set_ab_names()	2021-12-05 22:06:45 +01:00
dr. M.S. (Matthijs) Berends	9a2c431e16	(v1.7.1.9053) fortify() methods	2021-11-01 13:51:13 +01:00
dr. M.S. (Matthijs) Berends	37e6e35ec4	(v1.7.1.9051) updated taxonomy, updated git branch name	2021-10-06 13:23:57 +02:00
dr. M.S. (Matthijs) Berends	93a4734b44	(v1.7.1.9040) Support for Danish	2021-09-29 12:12:35 +02:00
dr. M.S. (Matthijs) Berends	d6a916d70b	(v1.7.1.9030) unit test	2021-08-29 23:50:45 +02:00
dr. M.S. (Matthijs) Berends	a44283f998	(v1.7.1.9024) unit tests	2021-08-17 14:34:11 +02:00
dr. M.S. (Matthijs) Berends	a2d249962f	(v1.7.1.9023) Removed filter_ functions, new set_ab_names(), ATC code update, ab selector update, fixes #46 and fixed #47	2021-08-16 21:54:34 +02:00
dr. M.S. (Matthijs) Berends	4e1efd902c	(v1.7.1.9022) rely on vctrs for ab selectors	2021-07-23 21:42:11 +02:00
dr. M.S. (Matthijs) Berends	fc946564d1	(v1.7.1.9019) Morganella MIC in EUCAST 2021	2021-07-12 12:28:41 +02:00
dr. M.S. (Matthijs) Berends	625a6fb304	(v1.7.1.9015) removed S3 taxonomic_name again	2021-07-07 20:34:05 +02:00
dr. M.S. (Matthijs) Berends	ad10693a1a	(v1.7.1.9014) rep() for S3 classes	2021-07-06 16:35:14 +02:00
dr. M.S. (Matthijs) Berends	5b5741f681	(v1.7.1.9011) subsetting taxonomy fix	2021-07-04 15:26:50 +02:00
dr. M.S. (Matthijs) Berends	7e70403efb	(v1.7.1) New CRAN release	2021-06-03 15:19:21 +02:00
dr. M.S. (Matthijs) Berends	bef0f42f66	(v1.7.0.9001) CLSI 2020 guideline	2021-06-01 15:33:06 +02:00
dr. M.S. (Matthijs) Berends	f406319503	(v1.7.0.9000) package size	2021-05-30 22:14:38 +02:00
dr. M.S. (Matthijs) Berends	ac73a8d849	v1.7.0	2021-05-24 15:29:17 +02:00
dr. M.S. (Matthijs) Berends	a13fd98e8b	(v1.6.0.9063) prepare new release	2021-05-24 09:00:11 +02:00
dr. M.S. (Matthijs) Berends	b210f1327c	(v1.6.0.9055) support codecov again	2021-05-21 20:20:51 +02:00
dr. M.S. (Matthijs) Berends	29dbfa2f49	(v1.6.0.9021) join functions update	2021-05-12 18:15:03 +02:00
dr. M.S. (Matthijs) Berends	c5fff1c95c	(v1.6.0.9011) unit tests	2021-04-27 10:27:13 +02:00
dr. M.S. (Matthijs) Berends	c6289c3fc3	(v1.6.0.9007) documentation custom eucast rules, progress bar as.mo	2021-04-20 10:46:17 +02:00
dr. M.S. (Matthijs) Berends	00d3e437a8	(v1.6.0.9003) like() fix	2021-04-16 11:41:05 +02:00
dr. M.S. (Matthijs) Berends	551f99dc8f	v1.6.0	2021-03-15 07:23:21 +01:00
dr. M.S. (Matthijs) Berends	4e0a9533ad	(v1.5.0.9041) SNOMED update	2021-03-11 21:42:30 +01:00
dr. M.S. (Matthijs) Berends	91dd755cac	(v1.5.0.9031) math processing of MICs	2021-03-05 15:36:39 +01:00
dr. M.S. (Matthijs) Berends	ddf88345f1	(v1.5.0.9028) Updated taxonomy until March 2021	2021-03-04 23:28:32 +01:00
dr. M.S. (Matthijs) Berends	601ea7377c	(v1.5.0.9019) use functions without loading AMR pkg	2021-02-17 10:58:13 +01:00
dr. M.S. (Matthijs) Berends	4a84894f79	(v1.5.0.9016) only_rsi_columns update, documentation	2021-02-08 14:18:42 +01:00
dr. M.S. (Matthijs) Berends	8fda473e49	(v1.5.0.9015) unit test fix, grouped first isolates	2021-02-04 16:48:16 +01:00
dr. M.S. (Matthijs) Berends	2eca8c3f01	(v1.5.0.9014) only_rsi_columns, is.rsi.eligible improvement	2021-02-02 23:57:35 +01:00
dr. M.S. (Matthijs) Berends	1ba44776a1	(v1.5.0.9008) Internal data sets to pkg, speed for auto col determination	2021-01-22 10:20:41 +01:00
dr. M.S. (Matthijs) Berends	4eab095306	(v1.5.0.9006) major documentation update	2021-01-18 16:57:56 +01:00
dr. M.S. (Matthijs) Berends	7ebc534ccd	(v1.5.0.9003) verbose output of mdro()	2021-01-15 22:44:52 +01:00