600 Commits

Author	SHA1	Message	Date
dr. M.S. (Matthijs) Berends	47fe8b7820	(v1.0.0.9004) add example_isolaten_unclean	2020-02-21 16:05:19 +01:00
dr. M.S. (Matthijs) Berends	bb3728f023	(v1.0.0.9003) prepare for short update	2020-02-21 13:13:34 +01:00
dr. M.S. (Matthijs) Berends	6408911922	(v1.0.0.9002) fix lintr	2020-02-20 20:31:42 +01:00
dr. M.S. (Matthijs) Berends	bdb26f624f	(v1.0.0.9001) add uti to as.rsi()	2020-02-20 17:21:01 +01:00
dr. M.S. (Matthijs) Berends	c6184a0fb8	(v0.9.0.9029) add uti to as.rsi()	2020-02-20 13:19:23 +01:00
dr. M.S. (Matthijs) Berends	a5db82c2fb	v 1.0.0	2020-02-20 12:49:55 +01:00
dr. M.S. (Matthijs) Berends	c8981a563e	(v0.9.0.9027) documentation fix	2020-02-17 15:07:25 +01:00
dr. M.S. (Matthijs) Berends	5e2b294351	(v0.9.0.9026) update documentation	2020-02-17 14:38:01 +01:00
dr. M.S. (Matthijs) Berends	11f00f8a0a	(v0.9.0.9025) update as.rsi documentation	2020-02-16 22:43:56 +01:00
dr. M.S. (Matthijs) Berends	c7a93af3d0	(v0.9.0.9024) global vars fix	2020-02-14 20:03:43 +01:00
dr. M.S. (Matthijs) Berends	9b8b02960e	(v0.9.0.9023) EUCAST 2020 guidelines	2020-02-14 19:54:13 +01:00
dr. M.S. (Matthijs) Berends	5a98e6b777	(v0.9.0.9022) inheritance fix	2020-02-10 14:18:15 +01:00
dr. M.S. (Matthijs) Berends	b4356a299c	(v0.9.0.9021) inheritance fix	2020-02-10 12:25:02 +01:00
dr. M.S. (Matthijs) Berends	c7a76ba713	(v0.9.0.9020) as.mo() improvement	2020-02-09 22:04:29 +01:00
dr. M.S. (Matthijs) Berends	4e1c16c5a5	(v0.9.0.9019) website update	2020-02-01 15:09:36 +01:00
dr. M.S. (Matthijs) Berends	f152ab9a48	(v0.9.0.9018) Remove mo_history	2020-01-31 23:27:38 +01:00
dr. M.S. (Matthijs) Berends	1b80773c22	(v0.9.0.9017) documentation fix	2020-01-27 19:30:26 +01:00
dr. M.S. (Matthijs) Berends	a13c62e6e8	(v0.9.0.9016) Support SNOMED codes	2020-01-27 19:14:23 +01:00
dr. M.S. (Matthijs) Berends	42b079cdb7	(v0.9.0.9015) Fix for as.rsi.disk()	2020-01-27 11:37:00 +01:00
dr. M.S. (Matthijs) Berends	9a3891efe4	(v0.9.0.9014) Machine reading guidelines	2020-01-27 11:05:39 +01:00
dr. M.S. (Matthijs) Berends	423d1d3c41	(v0.9.0.9013) Support for LOINC codes	2020-01-26 20:38:54 +01:00
dr. M.S. (Matthijs) Berends	449d9bde35	(v0.9.0.9012) Support for LOINC codes	2020-01-26 20:20:00 +01:00
dr. M.S. (Matthijs) Berends	19172b1d48	(v0.9.0.9011) Support R 4.0	2020-01-15 16:40:34 +01:00
dr. M.S. (Matthijs) Berends	895e97c310	(v0.9.0.9010) Support R 4.0	2020-01-15 15:24:08 +01:00
dr. M.S. (Matthijs) Berends	64f5ceef03	(v0.9.0.9009) antibiotics data set update	2020-01-08 11:30:33 +01:00
dr. M.S. (Matthijs) Berends	ced1a7b7fa	(v0.9.0.9008) Happy new year! Add lifecycles	2020-01-05 17:22:09 +01:00
dr. M.S. (Matthijs) Berends	f4669889e5	(v0.9.0.9007) website update	2019-12-27 11:56:54 +01:00
dr. M.S. (Matthijs) Berends	db5dfff0ca	(v0.9.0.9006) added CITATION file	2019-12-22 11:43:38 +01:00
dr. M.S. (Matthijs) Berends	ba3ce77f02	(v0.9.0.9005) as.mo for G. species	2019-12-21 10:56:06 +01:00
dr. M.S. (Matthijs) Berends	cc8cd043e1	(v0.9.0.9004) website fix	2019-12-20 21:06:39 +01:00
dr. M.S. (Matthijs) Berends	2db2a2458a	(v0.9.0.9003) as.mo() speedup for fullnames	2019-12-20 15:05:58 +01:00
dr. M.S. (Matthijs) Berends	f7eb6e4107	(v0.9.0.9002) website updates	2019-12-16 11:08:25 +01:00
dr. M.S. (Matthijs) Berends	bb2ed55842	(v0.9.0) v0.9.0	2019-11-29 19:43:23 +01:00
dr. M.S. (Matthijs) Berends	9feef53bde	(v0.8.0.9037) complete documentation rewrite	2019-11-28 23:00:37 +01:00
dr. M.S. (Matthijs) Berends	c5f00f4a9f	(v0.8.0.9036) complete documentation rewrite	2019-11-28 22:32:17 +01:00
dr. M.S. (Matthijs) Berends	7c28b392b1	(v0.8.0.9035) add more mo codes	2019-11-24 22:48:56 +01:00
dr. M.S. (Matthijs) Berends	e53cc4990c	(v0.8.0.9034) add cid to antivirals	2019-11-23 12:39:57 +01:00
dr. M.S. (Matthijs) Berends	267320f15f	(v0.8.0.9033) antivirals data set, cleanup	2019-11-18 12:10:47 +01:00
dr. M.S. (Matthijs) Berends	67f3f4387b	(v0.8.0.9032) fix regex error	2019-11-15 16:50:46 +01:00
dr. M.S. (Matthijs) Berends	09e2730b53	(v0.8.0.9031) as.mo() improvements	2019-11-15 15:25:03 +01:00
dr. M.S. (Matthijs) Berends	248b45da71	(v0.8.0.9030) depend on tidyr >= 1.0.0	2019-11-11 10:46:39 +01:00
dr. M.S. (Matthijs) Berends	d22834c5b8	(v0.8.0.9029) cleanup	2019-11-10 15:50:18 +01:00
dr. M.S. (Matthijs) Berends	54b6322056	(v0.8.0.9028) examples fix	2019-11-10 13:17:20 +01:00
dr. M.S. (Matthijs) Berends	59ededa8dc	(v0.8.0.9027) adding susceptibility() and resistance()	2019-11-10 12:16:56 +01:00
dr. M.S. (Matthijs) Berends	228a4245cb	(v0.8.0.9026) appveyor fix	2019-11-10 09:26:25 +01:00
dr. M.S. (Matthijs) Berends	a8c48cb2d7	(v0.8.0.9025) appveyor fix	2019-11-10 09:21:43 +01:00
dr. M.S. (Matthijs) Berends	07f945de53	(v0.8.0.9024) appveyor fix	2019-11-10 09:04:18 +01:00
dr. M.S. (Matthijs) Berends	e252f68cdb	(v0.8.0.9023) appveyor fix	2019-11-09 17:13:31 +01:00
dr. M.S. (Matthijs) Berends	32e3a98967	(v0.8.0.9022) update vignettes	2019-11-09 16:37:41 +01:00
dr. M.S. (Matthijs) Berends	ef640add2d	(v0.8.0.9021) update vignettes	2019-11-09 11:33:22 +01:00
dr. M.S. (Matthijs) Berends	e2d05cb1b0	(v0.8.0.9017) keywords update	2019-11-06 14:43:23 +01:00
dr. M.S. (Matthijs) Berends	be9a3e6b12	(v0.8.0.9016) unit test update	2019-11-05 23:07:05 +01:00
dr. M.S. (Matthijs) Berends	d19c44a25f	(v0.8.0.9015) unit test update	2019-11-05 22:42:00 +01:00
dr. M.S. (Matthijs) Berends	a1fd2cd98a	(v0.8.0.9014) unit test update	2019-11-05 22:23:45 +01:00
dr. M.S. (Matthijs) Berends	2560aa1a53	(v0.8.0.9013) unit test update	2019-11-05 21:52:58 +01:00
dr. M.S. (Matthijs) Berends	5345d2759a	(v0.8.0.9012) mdro improvement	2019-11-05 11:28:52 +01:00
dr. M.S. (Matthijs) Berends	fe606e287b	(v0.8.0.9011) col guess update	2019-11-04 12:08:08 +01:00
dr. M.S. (Matthijs) Berends	9060233953	(v0.8.0.9010) mdro bug fix	2019-11-04 11:35:34 +01:00
dr. M.S. (Matthijs) Berends	0bb531f3e0	(v0.8.0.9009) unit test	2019-11-03 22:41:29 +01:00
dr. M.S. (Matthijs) Berends	29e448883d	(v0.8.0.9008) new verbose mode for MDROs	2019-11-03 22:24:42 +01:00
dr. M.S. (Matthijs) Berends	09c4b04cd0	(v0.8.0.9007) Enterobacterales order	2019-10-30 23:02:50 +01:00
dr. M.S. (Matthijs) Berends	7ff2ad8188	(v0.8.0.9006) small typos	2019-10-27 00:31:59 +02:00
dr. M.S. (Matthijs) Berends	412077a6f2	(v0.8.0.9005) fix unit tests	2019-10-26 22:21:26 +02:00
dr. M.S. (Matthijs) Berends	d2e8249edd	(v0.8.0.9004) added MDR guideline by Magiorakos et al.	2019-10-26 21:56:41 +02:00
dr. M.S. (Matthijs) Berends	c01dc8a5b7	(v0.8.0.9003) printing fix for AB columns	2019-10-23 15:44:11 +02:00
dr. M.S. (Matthijs) Berends	3e5ab53209	(v0.8.0.9002) eucast_rules() fix for S. maltophilia	2019-10-23 14:48:25 +02:00
dr. M.S. (Matthijs) Berends	666126cd5e	(v0.8.0.9001) guideline text on as.rsi()	2019-10-21 14:12:28 +02:00
dr. M.S. (Matthijs) Berends	1b8e2366f7	(v0.8.0.9000) website update	2019-10-16 22:47:48 +02:00
dr. M.S. (Matthijs) Berends	ca13cc7633	v0.8.0	2019-10-15 22:19:34 +02:00
dr. M.S. (Matthijs) Berends	10e6b225e7	(v0.7.1.9107) v0.8.0	2019-10-15 14:35:23 +02:00
dr. M.S. (Matthijs) Berends	2c0f3534bf	(v0.7.1.9106) v0.8.0	2019-10-13 09:31:58 +02:00
dr. M.S. (Matthijs) Berends	1736fb62d6	(v0.7.1.9105) another try	2019-10-12 10:08:55 +02:00
dr. M.S. (Matthijs) Berends	2eb4a42f3d	(v0.7.1.9104) vignette fix	2019-10-12 09:15:27 +02:00
dr. M.S. (Matthijs) Berends	b2a08d056b	(v0.7.1.9103) add lintr to CI	2019-10-11 19:16:49 +02:00
dr. M.S. (Matthijs) Berends	00cdb498a0	(v0.7.1.9102) lintr	2019-10-11 17:21:02 +02:00
dr. M.S. (Matthijs) Berends	59af355a89	(v0.7.1.9101) NEWS update, fix authors	2019-10-09 10:52:19 +02:00
dr. M.S. (Matthijs) Berends	c8f6b97847	(v0.7.1.9100) bug_drug speed, MIC levels	2019-10-08 22:21:33 +02:00
dr. M.S. (Matthijs) Berends	5dbff3e170	(v0.7.1.9098) mdro() unit test fix	2019-10-07 15:12:42 +02:00
dr. M.S. (Matthijs) Berends	f479dfce60	(v0.7.1.9097) mdro() examples fix	2019-10-07 14:57:27 +02:00
dr. M.S. (Matthijs) Berends	4e9c4c1b4e	(v0.7.1.9096) German guideline for mdro()	2019-10-07 14:32:06 +02:00
dr. M.S. (Matthijs) Berends	1e260d85c8	(v0.7.1.9095) get_column_abx() fix	2019-10-06 22:19:26 +02:00
dr. M.S. (Matthijs) Berends	3d5692219e	(v0.7.1.9094) get_column_abx() improvement	2019-10-06 21:44:08 +02:00
dr. M.S. (Matthijs) Berends	b6653a620a	(v0.7.1.9093) as.ab() fix	2019-10-06 21:07:38 +02:00
dr. M.S. (Matthijs) Berends	8bc4081b03	(v0.7.1.9092) as.ab() improvements	2019-10-04 15:36:12 +02:00
dr. M.S. (Matthijs) Berends	edb599ae0b	(v0.7.1.9091) percentage from clean pkg	2019-09-30 16:45:36 +02:00
dr. M.S. (Matthijs) Berends	b39e7feae6	(v0.7.1.9090) factor levels of mdr_tb	2019-09-26 21:58:06 +02:00
dr. M.S. (Matthijs) Berends	b9f01d686e	(v0.7.1.9089) eucast file update	2019-09-25 22:37:40 +02:00
dr. M.S. (Matthijs) Berends	99d0fe76dd	(v0.7.1.9088) bug_drug improvement	2019-09-25 15:43:22 +02:00
dr. M.S. (Matthijs) Berends	04cd0d25db	(v0.7.1.9087) small fix	2019-09-23 23:09:50 +02:00
dr. M.S. (Matthijs) Berends	38336d7408	(v0.7.1.9086) small fix	2019-09-23 23:00:18 +02:00
dr. M.S. (Matthijs) Berends	ad5f211a8f	(v0.7.1.9085) Salmonella fix	2019-09-23 21:24:37 +02:00
dr. M.S. (Matthijs) Berends	76dc948067	(v0.7.1.9084) CI fix	2019-09-23 20:55:54 +02:00
dr. M.S. (Matthijs) Berends	8ce252fbc5	(v0.7.1.9083) LIS code improvement	2019-09-23 17:32:05 +02:00
dr. M.S. (Matthijs) Berends	a8c6b8f9c4	(v0.7.1.9082) CI fix	2019-09-23 14:37:24 +02:00
dr. M.S. (Matthijs) Berends	64d9829030	(v0.7.1.9081) bug_drug fixes	2019-09-23 13:53:50 +02:00
dr. M.S. (Matthijs) Berends	66d405ff57	(v0.7.1.9080) new LIS codes	2019-09-22 17:19:59 +02:00
dr. M.S. (Matthijs) Berends	57b0bd92a0	(v0.7.1.9079) small fixes	2019-09-22 12:41:45 +02:00
dr. M.S. (Matthijs) Berends	46b61e9a70	(v0.7.1.9078) unit tests	2019-09-20 14:50:02 +02:00
dr. M.S. (Matthijs) Berends	40e6b3e8f6	(v0.7.1.9077) mo codes fix	2019-09-20 14:18:29 +02:00
dr. M.S. (Matthijs) Berends	3596adb295	(v0.7.1.9076) mo codes	2019-09-20 12:33:05 +02:00
dr. M.S. (Matthijs) Berends	e2aa4f996b	(v0.7.1.9075) new microorganism codes	2019-09-18 15:46:09 +02:00
dr. M.S. (Matthijs) Berends	f553a08a7b	(v0.7.1.9074) CI updates	2019-09-16 12:00:56 +02:00
dr. M.S. (Matthijs) Berends	398c5bdc4f	(v0.7.1.9073) as.mo() self-learning algorithm	2019-09-15 22:57:30 +02:00
dr. M.S. (Matthijs) Berends	cd178ee569	(v0.7.1.9072) key_antibiotics() for foreign systems	2019-09-12 15:08:53 +02:00
dr. M.S. (Matthijs) Berends	b5d2a08401	(v0.7.1.9071) p_symbol()	2019-09-03 09:47:39 +02:00
dr. M.S. (Matthijs) Berends	06b6266366	(v0.7.1.9070) na.rm for age(), age_groups()	2019-09-02 15:17:41 +02:00
dr. M.S. (Matthijs) Berends	c7be72f0ce	(v0.7.1.9069) documentation update	2019-09-01 13:16:57 +02:00
dr. M.S. (Matthijs) Berends	88ee1b7268	(v0.7.1.9068) gramstain to freq()	2019-08-30 14:50:56 +02:00
dr. M.S. (Matthijs) Berends	34a82d091e	(v0.7.1.9067) honor info	2019-08-28 17:12:48 +02:00
dr. M.S. (Matthijs) Berends	e2b78fa428	(v0.7.1.9066) bug-drug fix	2019-08-27 23:00:00 +02:00
dr. M.S. (Matthijs) Berends	248638ad91	(v0.7.1.9065) bug-drug fix	2019-08-27 22:41:09 +02:00
dr. M.S. (Matthijs) Berends	f3276592b7	(v0.7.1.9064) bug-drug fix	2019-08-27 19:15:04 +02:00
dr. M.S. (Matthijs) Berends	93be16484b	(v0.7.1.9063) septic_patients -> example_isolates	2019-08-27 16:45:42 +02:00
dr. M.S. (Matthijs) Berends	7a6fce4eb8	(v0.7.1.9062) mo/ab assignment improvements	2019-08-26 16:02:03 +02:00
dr. M.S. (Matthijs) Berends	13d4fef801	(v0.7.1.9061) mo_property improvement	2019-08-26 10:03:37 +02:00
dr. M.S. (Matthijs) Berends	05dcb43660	(v0.7.1.9060) globals	2019-08-25 23:25:12 +02:00
dr. M.S. (Matthijs) Berends	e46cb0399f	(v0.7.1.9059) bug_drug_combinations	2019-08-25 22:53:22 +02:00
dr. M.S. (Matthijs) Berends	7c069145ac	(v0.7.1.9058) as.mo() improvement	2019-08-20 11:40:54 +02:00
dr. M.S. (Matthijs) Berends	04d49a62af	(v0.7.1.9057) get_column_abx() improvement	2019-08-15 17:09:27 +02:00
dr. M.S. (Matthijs) Berends	920212e815	(v0.7.1.9056) mo and ab subsetting	2019-08-14 14:57:06 +02:00
dr. M.S. (Matthijs) Berends	7108454ba5	(v0.7.1.9055) algorithm improvements	2019-08-13 16:15:08 +02:00
dr. M.S. (Matthijs) Berends	5f2733349e	(v0.7.1.9038) mo algorithm inprovements	2019-08-12 19:07:15 +02:00
dr. M.S. (Matthijs) Berends	c44c5e3913	(v0.7.1.9037) CI and global env fix	2019-08-12 15:34:49 +02:00
dr. M.S. (Matthijs) Berends	bd252a2984	(v0.7.1.9036) preserve ab/mo classes in subsetting	2019-08-12 14:48:09 +02:00
dr. M.S. (Matthijs) Berends	1d423cca89	(v0.7.1.9035) cephalosporins and unit tests	2019-08-11 19:07:26 +02:00
dr. M.S. (Matthijs) Berends	3f5828e74a	(v0.7.1.9034) mo.codes fix for Dracunculus spp.	2019-08-09 23:45:26 +02:00
dr. M.S. (Matthijs) Berends	6598c5615d	(v0.7.1.9033) 5000 new fungi	2019-08-09 23:22:10 +02:00
dr. M.S. (Matthijs) Berends	6a349bf757	(v0.7.1.9032) eucast_rules() improvements	2019-08-09 14:28:46 +02:00
dr. M.S. (Matthijs) Berends	1ce4b72dd2	(v0.7.1.9031) include_unknown for first_isolate()	2019-08-08 22:39:42 +02:00
dr. M.S. (Matthijs) Berends	22a206ffd8	(v0.7.1.9030) eucast_rules() fix	2019-08-08 15:52:07 +02:00
dr. M.S. (Matthijs) Berends	f67c739892	(v0.7.1.9029) unit test	2019-08-07 18:56:14 +02:00
dr. M.S. (Matthijs) Berends	bfa92eb166	(v0.7.1.9028) predict update	2019-08-07 15:58:32 +02:00
dr. M.S. (Matthijs) Berends	90c874025a	(v0.7.1.9027) tibble printing	2019-08-07 15:37:39 +02:00
dr. M.S. (Matthijs) Berends	14c47da656	(v0.7.1.9026) NAMESPACE fix	2019-08-06 15:57:51 +02:00
dr. M.S. (Matthijs) Berends	3a1f960f89	(v0.7.1.9024) eucast_rules() fix, new MOs	2019-08-06 14:39:22 +02:00
dr. M.S. (Matthijs) Berends	85b62aaf8f	(v0.7.1.9023) wrong percentage in as.mo()	2019-08-04 17:41:12 +02:00
dr. M.S. (Matthijs) Berends	643c5ed807	(v0.7.1.9022) CI fix for codecov	2019-08-04 11:33:56 +02:00
dr. M.S. (Matthijs) Berends	d6ab3896a1	(v0.7.1.9021) CI fix for resistance_predict	2019-08-04 10:48:41 +02:00
dr. M.S. (Matthijs) Berends	4f3ef53c78	(v0.7.1.9020) CI fix 2	2019-08-03 21:51:08 +02:00
dr. M.S. (Matthijs) Berends	a6606d334c	(v0.7.1.9019) CI fix	2019-07-30 19:20:13 +02:00
dr. M.S. (Matthijs) Berends	2a62c3d62a	(v0.7.1.9018) deps	2019-07-30 13:12:40 +02:00
dr. M.S. (Matthijs) Berends	ec0ca20dee	(v0.7.1.9017) deps	2019-07-29 21:20:26 +02:00
dr. M.S. (Matthijs) Berends	b7e2d7b9b8	(v0.7.1.9016) deps	2019-07-29 17:34:57 +02:00
dr. M.S. (Matthijs) Berends	240f03a672	(v0.7.1.9015) Remove freq()	2019-07-29 13:33:48 +02:00
dr. M.S. (Matthijs) Berends	9ac5a34b36	(v0.7.1.9014) MO codes update	2019-07-16 16:14:11 +02:00
dr. M.S. (Matthijs) Berends	c652c6913f	(v0.7.1.9013) guess_mo_ab speed improvement	2019-07-11 13:39:18 +02:00
dr. M.S. (Matthijs) Berends	68230d0712	(v0.7.1.90012) mo_shortname fix	2019-07-10 21:36:51 +02:00
dr. M.S. (Matthijs) Berends	b452de2fe4	(v0.7.1.9010) eucast informative text in verbose mode	2019-07-09 13:36:03 +02:00
dr. M.S. (Matthijs) Berends	b15d59cf03	(v0.7.1.9009) note for WHOCC	2019-07-09 11:22:46 +02:00
dr. M.S. (Matthijs) Berends	d9e257f8db	(v0.7.1.9008) ab update	2019-07-04 19:08:18 +02:00
dr. M.S. (Matthijs) Berends	c57ad26c5b	(v0.7.1.9007) mdro update	2019-07-04 15:26:07 +02:00
dr. M.S. (Matthijs) Berends	4ff20af123	(v0.7.1.9006) new rsi calculations, atc class removal	2019-07-02 16:48:52 +02:00
dr. M.S. (Matthijs) Berends	156d550895	(v0.7.1.9005) new rsi calculations, atc class removal	2019-07-01 14:03:15 +02:00
dr. M.S. (Matthijs) Berends	65c6702b21	(v0.7.1.9004) atc class removal	2019-06-27 11:57:45 +02:00
dr. M.S. (Matthijs) Berends	6013fbefae	(v0.7.1.9003) website update	2019-06-23 21:35:17 +02:00
dr. M.S. (Matthijs) Berends	f2d7a19118	(v0.7.1.9002) website update	2019-06-23 17:44:36 +02:00
dr. M.S. (Matthijs) Berends	78ec32b990	v0.7.1	2019-06-23 17:41:31 +02:00
dr. M.S. (Matthijs) Berends	278244140c	(v0.7.0.9015) vignette fix	2019-06-22 21:33:13 +02:00
dr. M.S. (Matthijs) Berends	b94638d53e	(v0.7.0.9014) unit tests	2019-06-22 20:14:06 +02:00
dr. M.S. (Matthijs) Berends	c9156c004a	(v0.7.0.9013) mo_synonym fix	2019-06-22 14:49:12 +02:00
dr. M.S. (Matthijs) Berends	409397a337	(v0.7.0.9012) unit test	2019-06-18 19:28:26 +02:00
dr. M.S. (Matthijs) Berends	9c39c35f86	(v0.7.0.9010) mo_synonyms, plot/barplot fixes	2019-06-16 21:42:40 +02:00
dr. M.S. (Matthijs) Berends	980be2b22d	(v0.7.0.9009) global note	2019-06-13 16:40:35 +02:00
dr. M.S. (Matthijs) Berends	254745061c	(v0.7.0.9008) T. vaginalis, rsi_df	2019-06-13 14:28:46 +02:00
dr. M.S. (Matthijs) Berends	699e87ab4a	(v0.7.0.9007) renamed notes fix	2019-06-12 16:08:20 +02:00
dr. M.S. (Matthijs) Berends	44ab53128e	(v0.7.0.9006) ab algorithm fix for ATC codes	2019-06-11 15:31:32 +02:00
dr. M.S. (Matthijs) Berends	8f674e19bb	(v0.7.0.9005) ab algorithm update	2019-06-11 14:18:25 +02:00
dr. M.S. (Matthijs) Berends	f6c47c8c88	(v0.7.0.9004) pkgdown update	2019-06-09 08:57:54 +02:00
dr. M.S. (Matthijs) Berends	ec48f1d83b	(v0.7.0.9003) scale fix	2019-06-08 23:50:06 +02:00
dr. M.S. (Matthijs) Berends	f50d3a5ba1	(v0.7.0.9002) scale fix	2019-06-08 15:00:28 +02:00
dr. M.S. (Matthijs) Berends	f02679fb63	(v0.7.0.9001) new pathovars, small fixes	2019-06-07 22:47:37 +02:00
dr. M.S. (Matthijs) Berends	04c75e8e36	(v0.7.0.9000) new dev version	2019-06-03 20:52:24 +02:00
dr. M.S. (Matthijs) Berends	270aa0dd33	v0.7.0	2019-06-03 17:45:22 +02:00
dr. M.S. (Matthijs) Berends	bd73988f15	(v0.6.1.9053) prerelease fixes	2019-06-02 19:23:19 +02:00
dr. M.S. (Matthijs) Berends	8de0495008	(v0.6.1.9052) website update	2019-06-01 21:28:18 +02:00
dr. M.S. (Matthijs) Berends	2667fff8a7	(v0.6.1.9050) support staged install	2019-06-01 20:40:49 +02:00
dr. M.S. (Matthijs) Berends	4ed27c7e7a	(v0.6.1.9046) ggplot fix	2019-05-31 20:25:57 +02:00
dr. M.S. (Matthijs) Berends	493ae2ba0c	(v0.6.1.9044) first_isolate fix for species	2019-05-31 14:25:11 +02:00
dr. M.S. (Matthijs) Berends	8b5e2b030b	added boxplot for (grouped) freq()	2019-05-29 19:56:17 +02:00
dr. M.S. (Matthijs) Berends	27380fa021	fixes for microorganisms.codes	2019-05-28 16:50:40 +02:00
dr. M.S. (Matthijs) Berends	60983a1640	added mdr_tb()	2019-05-23 16:58:59 +02:00
dr. M.S. (Matthijs) Berends	f6bf54b37d	documentation fix	2019-05-13 20:16:51 +02:00
dr. M.S. (Matthijs) Berends	cc403169c6	first isolate missing dates fix	2019-05-13 14:56:23 +02:00
dr. M.S. (Matthijs) Berends	0dc0715dc6	CI tests	2019-05-13 12:21:57 +02:00
dr. M.S. (Matthijs) Berends	38a4421450	CI tests	2019-05-13 10:10:16 +02:00
dr. M.S. (Matthijs) Berends	68cc7ef0d0	new antibiotics	2019-05-10 16:44:59 +02:00
dr. M.S. (Matthijs) Berends	73f1ee1159	freq/age fix	2019-04-11 00:54:48 +02:00
dr. M.S. (Matthijs) Berends	cffb7787d8	cfta streptococci	2019-04-09 10:34:40 +02:00
dr. M.S. (Matthijs) Berends	13f85ac80f	small news update	2019-04-07 09:31:11 +02:00
dr. M.S. (Matthijs) Berends	501f5db020	prevent staged install	2019-04-06 11:09:06 +02:00
dr. M.S. (Matthijs) Berends	fbc9191b13	new EUCAST rules algorithm	2019-04-05 18:47:39 +02:00
dr. M.S. (Matthijs) Berends	248e508e9b	CI - test also on r-devel	2019-03-29 14:34:39 +01:00
dr. M.S. (Matthijs) Berends	b25f2d6213	v0.6.1	2019-03-28 21:33:28 +01:00
dr. M.S. (Matthijs) Berends	429814c29b	v0.6.0	2019-03-27 11:22:36 +01:00
dr. M.S. (Matthijs) Berends	fdffc2791b	memory for as.mo()	2019-03-15 13:57:25 +01:00
dr. M.S. (Matthijs) Berends	504a042fba	uncertainty levels, new WHONET codes	2019-03-12 12:19:27 +01:00
dr. M.S. (Matthijs) Berends	0c0c6e289b	small as.mo fix	2019-03-06 14:39:02 +01:00
dr. M.S. (Matthijs) Berends	5c7a061a5d	filter_ab_class fix	2019-03-06 09:32:48 +01:00
dr. M.S. (Matthijs) Berends	e835525cf6	unknown codes, rsi fix	2019-03-02 22:47:04 +01:00
dr. M.S. (Matthijs) Berends	2565b60024	rlang dependency, new fungi	2019-02-28 13:56:28 +01:00
dr. M.S. (Matthijs) Berends	f9ded23023	as.mo improvement	2019-02-26 12:33:26 +01:00
dr. M.S. (Matthijs) Berends	41ad7a22c8	mo_rank mo_url, added Tremellales	2019-02-22 22:12:10 +01:00
dr. M.S. (Matthijs) Berends	6c542268be	unit tests	2019-02-21 23:32:30 +01:00
dr. M.S. (Matthijs) Berends	fb1fc3686c	Catalogue of life	2019-02-20 00:04:48 +01:00
dr. M.S. (Matthijs) Berends	54f8258f8c	Catalogue of Life, replaces ITIS	2019-02-18 02:33:37 +01:00
dr. M.S. (Matthijs) Berends	c56b179857	as.rsi warning, site update	2019-02-09 22:16:24 +01:00
dr. M.S. (Matthijs) Berends	ed30312048	mo codes for WHONET	2019-02-08 16:06:54 +01:00
dr. M.S. (Matthijs) Berends	587e00b7be	is.rsi.eligible update	2019-02-04 12:24:07 +01:00
dr. M.S. (Matthijs) Berends	0b3dc0231f	freq fix	2019-01-30 16:00:55 +01:00
dr. M.S. (Matthijs) Berends	6aae206320	WHONET/EARS-Net support	2019-01-29 00:06:50 +01:00
dr. M.S. (Matthijs) Berends	f6336fdd89	quasiquotation for freq()	2019-01-28 11:20:32 +01:00
dr. M.S. (Matthijs) Berends	18b75356a9	re-add atc_ddd and atc_groups	2019-01-27 13:33:43 +01:00
dr. M.S. (Matthijs) Berends	f836722269	atc_ functions	2019-01-26 23:22:56 +01:00
dr. M.S. (Matthijs) Berends	f4ff98b470	WHO update, antibiotics update	2019-01-25 13:18:41 +01:00
dr. M.S. (Matthijs) Berends	9529d097b6	as.mo	2019-01-21 21:24:40 +01:00
dr. M.S. (Matthijs) Berends	46dcc7e2e8	set_mo_source	2019-01-21 15:53:01 +01:00
dr. M.S. (Matthijs) Berends	c6c3088e9f	select() fix for freq	2019-01-17 12:08:04 +01:00
dr. M.S. (Matthijs) Berends	046d195064	resistance predict	2019-01-15 12:45:24 +01:00
dr. M.S. (Matthijs) Berends	3661df7365	direct warning if failing as.mo	2019-01-12 16:45:20 +01:00
dr. M.S. (Matthijs) Berends	641d866db2	guess_ab_col, benchmarks	2019-01-11 20:37:23 +01:00
dr. M.S. (Matthijs) Berends	193a2d2863	EUCAST update, as.mo bugfix for empty vlaues	2019-01-08 16:23:45 +01:00
dr. M.S. (Matthijs) Berends	0205b6178d	guess_mo deprecation	2019-01-06 16:40:55 +01:00
dr. M.S. (Matthijs) Berends	2c798547bf	language	2019-01-05 21:40:04 +01:00
dr. M.S. (Matthijs) Berends	80ea555663	guess_ab	2019-01-03 23:56:19 +01:00
dr. M.S. (Matthijs) Berends	6b2d464f8c	big website update, licence txt update	2019-01-02 23:24:07 +01:00
dr. M.S. (Matthijs) Berends	2e4d703338	eucast rules fix, 1st isolate fix, website update	2018-12-31 01:48:53 +01:00
dr. M.S. (Matthijs) Berends	92a32b62a7	new website, freq updates	2018-12-29 22:24:19 +01:00
dr. M.S. (Matthijs) Berends	0b8084871d	dplyr 0.8.0 support, fixes #7	2018-12-22 22:39:34 +01:00
dr. M.S. (Matthijs) Berends	b937662a97	limits for scale_y_percent - Licence update	2018-12-16 22:45:12 +01:00
dr. M.S. (Matthijs) Berends	2018d5b477	age and age_groups	2018-12-15 22:40:07 +01:00
dr. M.S. (Matthijs) Berends	857f565db0	reorganised notes and warnings	2018-12-14 10:52:20 +01:00
dr. M.S. (Matthijs) Berends	dec4947103	freq header fix for NAs	2018-12-14 10:08:51 +01:00
dr. M.S. (Matthijs) Berends	81af7be36e	note about portions	2018-12-14 07:23:25 +01:00
dr. M.S. (Matthijs) Berends	01a6d56334	add kingdom to mo_taxonomy	2018-12-10 21:47:25 +01:00
dr. M.S. (Matthijs) Berends	5ab7eb07bc	keyab automatic	2018-12-10 15:14:29 +01:00
dr. M.S. (Matthijs) Berends	9478ab71be	freq - decimals	2018-12-10 10:13:40 +01:00
dr. M.S. (Matthijs) Berends	8e8a9cd190	AI improvements	2018-12-07 12:04:55 +01:00
dr. M.S. (Matthijs) Berends	60fe98bbbd	better as.mo handling	2018-12-06 14:36:39 +01:00
dr. M.S. (Matthijs) Berends	5cfa5bbfe3	v0.5.0	2018-11-30 16:16:04 +01:00
dr. M.S. (Matthijs) Berends	9ddf6dc530	support A. species for as.mo, cleanup	2018-11-24 20:25:09 +01:00
dr. M.S. (Matthijs) Berends	a8132922af	unit test read.4d, unselecting freq cols	2018-11-19 13:00:22 +01:00
dr. M.S. (Matthijs) Berends	4fcc2b409a	MDRO update	2018-11-16 20:50:50 +01:00
dr. M.S. (Matthijs) Berends	fab64e6728	read.4D improvements	2018-11-15 12:42:35 +01:00
dr. M.S. (Matthijs) Berends	6b0f4ffbd4	new kingdom	2018-11-09 13:11:54 +01:00
dr. M.S. (Matthijs) Berends	84e08f516a	grouping var for freq	2018-11-06 16:41:59 +01:00
dr. M.S. (Matthijs) Berends	d15bb2ab3f	read_4D	2018-11-05 15:30:49 +01:00
dr. M.S. (Matthijs) Berends	d07e9b904e	new function get_locale	2018-11-05 13:20:32 +01:00
dr. M.S. (Matthijs) Berends	d0bc05e5b1	speed improvement is.rsi.eligible	2018-11-02 14:55:29 +01:00
dr. M.S. (Matthijs) Berends	5476fecc73	eucast update	2018-11-01 20:23:33 +01:00
dr. M.S. (Matthijs) Berends	f7687557c9	eucast updates	2018-11-01 17:06:08 +01:00
dr. M.S. (Matthijs) Berends	9cd4ab928a	speed improvement as.mo, freq title	2018-10-31 12:10:49 +01:00
dr. M.S. (Matthijs) Berends	87757748bd	switch to gitlab	2018-10-23 16:49:40 +02:00
dr. M.S. (Matthijs) Berends	7997de6a6d	mdro and 1st isolate improvements	2018-10-23 11:15:05 +02:00
dr. M.S. (Matthijs) Berends	299c5bea43	na freq, removed factors	2018-10-23 09:42:26 +02:00
dr. M.S. (Matthijs) Berends	c2a93b46db	breaks param, tidyr dep change, freq markdown	2018-10-22 12:32:59 +02:00
dr. M.S. (Matthijs) Berends	ec15b82fd6	param header for freq	2018-10-19 21:52:08 +02:00
dr. M.S. (Matthijs) Berends	86b03577a7	fix for as.mo, added also_single_tested	2018-10-19 13:53:31 +02:00
dr. M.S. (Matthijs) Berends	b464dd524a	new verbose	2018-10-19 00:17:03 +02:00
dr. M.S. (Matthijs) Berends	0ef91be3ac	param rules for EUCAST	2018-10-18 12:10:10 +02:00
dr. M.S. (Matthijs) Berends	693f64bdbf	new EUCAST rules: clinical breakpoints	2018-10-17 17:32:34 +02:00
dr. M.S. (Matthijs) Berends	d5a41de711	parameter combine_IR	2018-10-16 09:59:31 +02:00
dr. M.S. (Matthijs) Berends	5b5b95a47b	count_all and some fixes	2018-10-12 16:35:18 +02:00
dr. M.S. (Matthijs) Berends	e7d937d36e	update NEWS	2018-10-10 10:50:19 +02:00
dr. M.S. (Matthijs) Berends	95c9fdc552	CRAN fixes for release 0.4.0 ... https://cran.r-project.org/web/checks/check_results_AMR.html	2018-10-09 13:53:33 +02:00
dr. M.S. (Matthijs) Berends	c7c57f4042	0.4.0, just published on CRAN	2018-10-01 19:36:42 +02:00
dr. M.S. (Matthijs) Berends	ed17db0263	renamed year columns to ref	2018-10-01 14:44:40 +02:00
dr. M.S. (Matthijs) Berends	3119a221e5	authors from ITIS, diff for freq	2018-10-01 11:39:43 +02:00
dr. M.S. (Matthijs) Berends	92c9cc2608	diff for freq, fix for mo_shortname	2018-09-29 21:54:32 +02:00
dr. M.S. (Matthijs) Berends	768fe17324	removed clipboard functions as it violated CRAN policies	2018-09-28 16:05:18 +02:00
dr. M.S. (Matthijs) Berends	9c566585b0	first inclusion of ITIS data	2018-09-24 23:33:29 +02:00
dr. M.S. (Matthijs) Berends	5d80cef338	added taxonomic data from ITIS	2018-09-17 20:53:32 +02:00
dr. M.S. (Matthijs) Berends	7680e4edd8	add shortest and longest to freq for characters	2018-09-17 09:42:09 +02:00
dr. M.S. (Matthijs) Berends	db14781593	add labels_rsi_count	2018-09-16 22:11:17 +02:00
dr. M.S. (Matthijs) Berends	b792a2754e	added prevalence column and alterted as.mo algorith to use it, added ab_name as alias	2018-09-16 16:43:29 +02:00
dr. M.S. (Matthijs) Berends	b0ca49d68d	small improvement for is.rsi.eligible, more unit tests	2018-09-14 11:54:01 +02:00
dr. M.S. (Matthijs) Berends	cf5711fb0b	algorithm improvement	2018-09-14 10:31:21 +02:00
dr. M.S. (Matthijs) Berends	cb0d74a4f0	support for French and Italian, added quote to freq	2018-09-10 15:45:25 +02:00
dr. M.S. (Matthijs) Berends	b83e6a9380	algoritm improvement, removed all Catabacter except for C. hongkongensis	2018-09-10 11:40:54 +02:00
dr. M.S. (Matthijs) Berends	26f5be0033	support for portuguese, language determination based on system	2018-09-08 16:06:47 +02:00
dr. M.S. (Matthijs) Berends	e39a9a8b05	added mo_shortname	2018-09-05 10:51:46 +02:00
dr. M.S. (Matthijs) Berends	790bd1622d	added vanA to vanE positive Enterococci	2018-09-05 09:49:19 +02:00
dr. M.S. (Matthijs) Berends	b388e3fee7	Support for German and Spanish microorganism properties, cleanup	2018-09-04 11:33:30 +02:00
dr. M.S. (Matthijs) Berends	5405002119	news update	2018-09-03 11:22:28 +02:00
dr. M.S. (Matthijs) Berends	e25dd0e282	fix for joins	2018-09-03 10:04:49 +02:00
dr. M.S. (Matthijs) Berends	75fe4d401f	new MOs, cleanup	2018-09-01 21:19:46 +02:00
dr. M.S. (Matthijs) Berends	5965d3c794	replaced bactid by mo	2018-08-31 13:36:19 +02:00
dr. M.S. (Matthijs) Berends	d9e68e0a50	ggplot_rsi example update, more unit tests	2018-08-29 16:25:57 +02:00
dr. M.S. (Matthijs) Berends	029157b3be	163 new trade names, added ab_tradenames	2018-08-29 12:27:37 +02:00
dr. M.S. (Matthijs) Berends	972fc4f6c7	ab_* functions, mo_* functions, 180 new microorganisms, speed improvement for bactid	2018-08-28 13:51:13 +02:00
dr. M.S. (Matthijs) Berends	2acdb1981c	atc and bactid functions, readme update	2018-08-25 22:01:14 +02:00
dr. M.S. (Matthijs) Berends	baaf4cc3e1	few extra tests	2018-08-24 14:18:38 +02:00
dr. M.S. (Matthijs) Berends	a100d07da6	removed ratio, better rsi_calc, update for freq	2018-08-24 11:08:20 +02:00
dr. M.S. (Matthijs) Berends	febd0ca885	geom_rsi - any parameter	2018-08-23 21:27:15 +02:00
dr. M.S. (Matthijs) Berends	8ab93b6688	unit tests	2018-08-23 01:01:50 +02:00
dr. M.S. (Matthijs) Berends	da5379c881	quasiquotation, alpha for geom_rsi	2018-08-23 00:40:36 +02:00
Christian Luz	87d08905cc	small change in mutate example	2018-08-22 12:55:05 +02:00
dr. M.S. (Matthijs) Berends	3e87c8f409	count_* functions	2018-08-22 00:02:26 +02:00
dr. M.S. (Matthijs) Berends	bc7e36b533	v0.3.0	2018-08-14 14:06:18 +02:00
dr. M.S. (Matthijs) Berends	7584c929a5	new AppVeyor environment	2018-08-14 08:57:17 +02:00
dr. M.S. (Matthijs) Berends	e5193c7749	AppVeyor	2018-08-13 23:05:53 +02:00