1
0
mirror of https://github.com/msberends/AMR.git synced 2024-12-26 18:06:11 +01:00
Commit Graph

601 Commits

Author SHA1 Message Date
2edd3339db (v1.4.0.9036) more unit tests 2020-12-11 12:17:23 +01:00
23ddc6004b (v1.4.0.9035) eucast_rules fix 2020-12-11 09:05:03 +01:00
c9fc7e8a45 (v1.4.0.9034) MIC printing update 2020-12-09 09:40:50 +01:00
2145f1d1ba (v1.4.0.9033) documentation update 2020-12-08 12:37:25 +01:00
1bdb136b3a (v1.4.0.9032) auto-data guessing for functions 2020-12-07 16:06:42 +01:00
fdf29e6c5b (v1.4.0.9031) as.ab() fix 2020-12-03 22:30:14 +01:00
e03b3c96d3 (v1.4.0.9030) as.mo() fix for known lab codes 2020-12-03 16:59:04 +01:00
4c114ff4b4 (v1.4.0.9029) grey background for backticks, like readr pkg 2020-12-01 16:59:57 +01:00
0e1fdb7dd7 (v1.4.0.9027) docu update 2020-11-25 20:26:02 +01:00
7b42b15c90 (v1.4.0.9026) docu update 2020-11-24 11:47:54 +01:00
b045b571a6 (v1.4.0.9025) is_new_episode() 2020-11-23 21:50:27 +01:00
363218da7e (v1.4.0.9024) is_new_episode() 2020-11-17 16:57:41 +01:00
0800d33228 (v1.4.0.9023) unit tests 2020-11-17 11:53:56 +01:00
93428415d0 (v1.4.0.9022) small bugfix 2020-11-16 20:02:20 +01:00
deefce9520 (v1.4.0.9021) more robust class setting 2020-11-16 16:57:55 +01:00
05fb213a7c (v1.4.0.9020) mo_is_intrinsic_resistant 2020-11-16 11:03:24 +01:00
9666b78ea7 (v1.4.0.9019) documentation update 2020-11-12 11:07:23 +01:00
f2edac3b67 (v1.4.0.9018) reference_data in as.rsi() 2020-11-11 18:54:03 +01:00
01d9522434 (v1.4.0.9017) stringsAsFactors definitions 2020-11-11 16:49:27 +01:00
68ac39aa7f (v1.4.0.9016) as.rsi() older R versions 2020-11-10 19:59:14 +01:00
15c732703d (v1.4.0.9015) bugfix 2020-11-10 16:35:56 +01:00
dd5a0319ef (v1.4.0.9014) bugfix 2020-11-09 15:18:36 +01:00
d3b1d33210 (v1.4.0.9013) is_gram_negative/positive update 2020-11-09 13:07:02 +01:00
423879c034 (v1.4.0.9012) reference_df fix 2020-11-05 01:11:49 +01:00
5a607abb36 (v1.4.0.9011) message formatting 2020-10-27 15:56:51 +01:00
3d096d96c2 (v1.4.0.9009) bugfix for older R version 2020-10-26 15:53:31 +01:00
760d69a3e0 (v1.4.0.9008) like variations 2020-10-26 12:23:03 +01:00
f720c9ba0b (v1.4.0.9007) bugfix 2020-10-21 15:28:48 +02:00
8f868388ce (v1.4.0.9006) bugfix 2020-10-21 14:40:00 +02:00
9109b9dd62 (v1.4.0.9005) bugfix 2020-10-21 13:07:23 +02:00
ade9f8bafd (v1.4.0.9004) bugfix 2020-10-21 11:50:43 +02:00
2ef7dfc8a3 (v1.4.0.9003) CoNS update 2020-10-20 21:00:57 +02:00
ddae8085e1 (v1.4.0.9002) bugfix 2020-10-19 20:44:45 +02:00
4e9ccb4435 (v1.4.0.9001) is_gram_positive(), is_gram_negative(), parameter hardening 2020-10-19 17:09:19 +02:00
833a1be36d (v1.4.0.9000) more extensive unit tests 2020-10-15 09:46:41 +02:00
28e77680c5 (v1.4.0) matching score update 2020-10-08 11:16:03 +02:00
c04dc852cf (v1.3.0.9039) lifecycle updates, added excess kurtosis 2020-10-04 21:02:16 +02:00
baf510183c (v1.3.0.9038) prefinal 1.4.0 2020-10-04 19:26:43 +02:00
3136bc54aa (v1.3.0.9037) pre-release 2020-09-30 10:54:23 +02:00
ac1c78c793 (v1.3.0.9036) documentation fix 2020-09-30 10:24:53 +02:00
4e0374af29 (v1.3.0.9035) mdro() for EUCAST 3.2, examples cleanup 2020-09-29 23:35:46 +02:00
68e6e1e329 (v1.3.0.9034) eucast_rules summary fix 2020-09-29 10:40:25 +02:00
36ec8b0d81 (v1.3.0.9033) skimr fix 2020-09-28 11:00:59 +02:00
519aada54f (v1.3.0.9032) support skimr 2020-09-28 01:08:55 +02:00
22f6ceb3e4 (v1.3.0.9031) matching score update 2020-09-26 16:51:17 +02:00
050a9a04fb (v1.3.0.9030) matching score update 2020-09-26 16:26:01 +02:00
9667c2994f (v1.3.0.9029) eucast rules fix, unique() 2020-09-25 14:44:50 +02:00
1d982a82b4 (v1.3.0.9028) eucast fix 2020-09-24 12:38:13 +02:00
027215ed94 (v1.3.0.9027) unit tests 2020-09-24 00:50:23 +02:00
c19095a3d5 (v1.3.0.9026) eucast expert rules 3.2 2020-09-24 00:30:11 +02:00
a1411ddafc (v1.3.0.9025) optimalisation 2020-09-19 15:15:57 +02:00
2f0186ace2 (v1.3.0.9024) optimalisation 2020-09-19 12:57:51 +02:00
d049cce69b (v1.3.0.9023) optimalisation 2020-09-19 11:54:01 +02:00
4e40e42011 (v1.3.0.9022) mo_matching_score(), poorman update, as.rsi() fix 2020-09-18 16:05:53 +02:00
89401ede9f (v1.3.0.9021) typo 2020-09-14 20:41:19 +02:00
ab60f613aa (v1.3.0.9020) fix for uncertainty in as.mo() 2020-09-14 19:41:48 +02:00
354c606d6a (v1.3.0.9019) small fix 2020-09-14 14:08:07 +02:00
7b6dd676f7 (v1.3.0.9018) language corrections 2020-09-14 12:21:23 +02:00
0f6760d427 (v1.3.0.9017) small fix 2020-09-12 13:54:21 +02:00
3ff871afeb (v1.3.0.9016) mo_uncertainties() overhaul 2020-09-12 08:49:01 +02:00
68e9cb78e9 (v1.3.0.9015) as.mo() speedup for valid taxonomic names 2020-09-03 20:59:21 +02:00
c4b87fe241 (v1.3.0.9014) as.mo() speed improvement 2020-09-03 12:31:48 +02:00
18e52f2725 (v1.3.0.9013) data sets vignette update 2020-08-29 21:52:51 +02:00
4f72b3bfc4 (v1.3.0.9012) data sets vignette update 2020-08-29 21:41:46 +02:00
50b953b141 (v1.3.0.9011) suggests pkg update 2020-08-29 12:04:23 +02:00
74a172ef55 (v1.3.0.9010) S3 extensions without dependencies 2020-08-28 21:55:47 +02:00
81af0b001c (v1.3.0.9009) documentation update 2020-08-26 16:13:40 +02:00
9b8db57c65 (v1.3.0.9008) also tibble printing for ab 2020-08-26 15:34:12 +02:00
5e45fdcf2a (v1.3.0.9007) tibble printing 2020-08-26 11:33:54 +02:00
c8c8bb4e3a (v1.3.0.9006) website update 2020-08-21 11:40:13 +02:00
818d0441e0 (v1.3.0.9005) website update 2020-08-17 21:49:58 +02:00
dab017a50f (v1.3.0.9004) data sets, as.disk() improvement 2020-08-16 21:38:42 +02:00
e73f0e211c (v1.3.0.9003) as.rsi() speed improvement 2020-08-15 12:54:47 +02:00
08d62bb5d5 (v1.3.0.9002) intrinsic_resistant data set 2020-08-14 13:36:10 +02:00
7d16bec21f (v1.3.0.9001) website update 2020-08-10 12:46:03 +02:00
0d9602a6a9 (v1.3.0.9000) support across() in as.rsi() 2020-08-10 11:44:58 +02:00
791bb6d33f (v1.3.0) remove vignettes from CRAN 2020-07-31 11:39:56 +02:00
c5f7294381 (v1.3.0) skip more CRAN tests 2020-07-31 10:50:08 +02:00
c8edcb7439 (v1.3.0) small fixes 2020-07-30 15:15:52 +02:00
8ff46eefe9 (v1.3.0) small MIC fix 2020-07-30 12:37:01 +02:00
ea4e5e5b81 (v1.3.0) v1.3.0 2020-07-29 13:48:50 +02:00
de0f7b8950 (v1.2.0.9040) conserve_capped_values for as.rsi() 2020-07-29 12:47:58 +02:00
e7def0aa4c (v1.2.0.9039) conserve_capped_values for as.rsi() 2020-07-29 11:46:59 +02:00
453f7f210b (v1.2.0.9038) CLSI 2019 fix 2020-07-29 10:33:47 +02:00
1b65d76cfb (v1.2.0.9037) survey on website 2020-07-28 18:39:57 +02:00
ab2b359e6b (v1.2.0.9036) unit test fix 2020-07-22 12:29:51 +02:00
09fba38ea6 (v1.2.0.9035) as.mo() speed improvement 2020-07-22 10:24:23 +02:00
6ab468362d (v1.2.0.9034) code cleaning 2020-07-13 09:17:24 +02:00
c0cf7ab02b (v1.2.0.9033) speed improvement mdro(), filter_ab_class() 2020-07-12 11:43:31 +02:00
1d66b5c43c (v1.2.0.9032) Permanently move to GitHub 2020-07-09 20:07:39 +02:00
a438dcc884 (v1.2.0.9031) GitHub Actions 2020-07-09 16:11:56 +02:00
7baa9d3658 (v1.2.0.9030) GitHub Actions 2020-07-09 14:12:11 +02:00
cf3c3ee8f7 (v1.2.0.9029) GitHub actions 2020-07-08 22:55:17 +02:00
d39d32448b (v1.2.0.9028) GitHub actions 2020-07-08 20:43:25 +02:00
5195e0b9da (v1.2.0.9027) move to github 2020-07-08 17:48:57 +02:00
76fc8e1b14 (v1.2.0.9026) move to github 2020-07-08 14:48:06 +02:00
2134fc76e2 (v1.2.0.9025) AMR calculation speed improvement 2020-07-03 12:14:41 +02:00
46cf423eab (v1.2.0.9024) AMR calculation speed improvement 2020-07-03 10:51:55 +02:00
152ac5bcad (v1.2.0.9023) ab_from_text() improvement 2020-07-02 21:12:52 +02:00
298e67a45b (v1.2.0.9022) as.ab() improvement 2020-07-01 16:21:36 +02:00
afc660dc33 (v1.2.0.9021) only progressbar in interactive sessions 2020-07-01 11:51:26 +02:00
cc6ce0a938 (v1.2.0.9020) ab_from_text() improvement 2020-07-01 11:23:05 +02:00
329a0eb0b6 (v1.2.0.9019) ab_from_text() dose and administration 2020-07-01 11:07:01 +02:00
240d817b4e (v1.2.0.9018) ab_from_text() improvement 2020-06-26 13:15:46 +02:00
4f6f056077 (v1.2.0.9017) ab_from_text() improvement 2020-06-26 12:31:27 +02:00
b31003c0b6 (v1.2.0.9016) fix in rsi_calc() 2020-06-26 10:21:22 +02:00
033ca49817 (v1.2.0.9015) ab_from_text() 2020-06-25 19:20:50 +02:00
344bbd57f4 (v1.2.0.9014) ab_from_text() 2020-06-25 17:34:50 +02:00
8a66e475d7 (v1.2.0.9013) unit test fix 2020-06-22 13:18:40 +02:00
779a4e8348 (v1.2.0.9012) mo_domain(), improved error handling 2020-06-22 12:18:53 +02:00
93a158aebd (v1.2.0.9011) mo_domain(), improved error handling 2020-06-22 11:18:40 +02:00
e88d7853f5 (v1.2.0.9010) documentation fix 2020-06-17 21:35:10 +02:00
f18389d5d6 (v1.2.0.9009) pkg dependency fix 2020-06-17 16:29:10 +02:00
ac12392da3 (v1.2.0.9008) ab_class improvement 2020-06-17 15:14:37 +02:00
c4d7412f36 (v1.2.0.9007) Tidyverse selections 2020-06-17 01:39:30 +02:00
4f94e1312f (v1.2.0.9006) improve auto col-determination 2020-06-11 20:03:13 +02:00
352508889c (v1.2.0.9005) data set fix 2020-06-09 16:31:44 +02:00
8b692ecfcf (v1.2.0.9004) rsi_df() fix for groups 2020-06-09 16:18:03 +02:00
40221e5244 (v1.2.0.9003) better terminal colour support 2020-06-05 13:56:05 +02:00
2c8d600914 (v1.2.0.9002) fix for joins 2020-06-03 14:33:55 +02:00
5dc4c96b7d (v1.2.0.9001) filter_ab_class() update 2020-06-03 11:48:00 +02:00
02d07b9fb3 (v1.2.0.9000) eucast_rules() fix for tibbles 2020-06-02 16:05:56 +02:00
b44e2c9202 v1.2.0 2020-05-28 16:48:55 +02:00
d9a4b0bcaf (v1.1.0.9021) 1st isolates update 2020-05-28 10:51:56 +02:00
86d44054f0 (v1.1.0.9020) updated taxonomy 2020-05-27 16:37:49 +02:00
ae1969b941 (v1.1.0.9019) mo_source fix 2020-05-25 01:01:14 +02:00
f5ff2e6634 (v1.1.0.9018) as.ab() update, added ab_url() 2020-05-22 20:29:55 +02:00
e467cc103e (v1.1.0.9017) as.ab() update, added ab_url() 2020-05-22 20:15:19 +02:00
1b1e243d14 (v1.1.0.9016) small fix 2020-05-21 12:28:57 +02:00
743f9a5364 (v1.1.0.9015) new default eucast_rules 2020-05-20 12:00:17 +02:00
5216d2b520 (v1.1.0.9014) lose dependencies 2020-05-19 14:16:45 +02:00
cb1814f5ff (v1.1.0.9013) lose dependencies 2020-05-19 13:18:01 +02:00
19703eb5d3 (v1.1.0.9012) lose dependencies 2020-05-19 12:08:49 +02:00
218fd08097 (v1.1.0.9011) lose dependencies 2020-05-18 13:59:34 +02:00
d659c9baef (v1.1.0.9010) lose dependencies 2020-05-18 11:09:02 +02:00
bf0402a653 (v1.1.0.9009) lose dependencies 2020-05-18 10:30:53 +02:00
071bdc5a9e (v1.1.0.9008) lose dependencies 2020-05-17 11:56:12 +02:00
f68d71a5e0 (v1.1.0.9007) lose dependencies 2020-05-16 21:40:50 +02:00
29609a0e2c (v1.1.0.9006) lose dependencies 2020-05-16 20:42:45 +02:00
df2456b91f (v1.1.0.9005) lose dependencies 2020-05-16 20:08:21 +02:00
7f3da74b17 (v1.1.0.9004) lose dependencies 2020-05-16 13:05:47 +02:00
9fce546901 (v1.1.0.9003) CI fix 2020-05-01 09:14:32 +02:00
77d8f97e0c (v1.1.0.9002) CI fix 2020-04-30 18:46:29 +02:00
5bdece1f9d (v1.1.0.9000) CI fix 2020-04-30 09:05:03 +02:00
b040185269 (v1.1.0.9000) CLSI as.rsi() fix, better vctrs support, new CI 2020-04-29 14:33:44 +02:00
e0f4c93e82 v1.1.0 2020-04-17 19:16:30 +02:00
c2ffbd9f95 (v1.0.1.9009) prepare for next release 2020-04-15 11:30:28 +02:00
4be54d608c (v1.0.1.9008) RIVM abbreviations for drugs 2020-04-14 20:38:09 +02:00
cde65141d9 (v1.0.1.9007) small bugfix 2020-04-14 15:10:09 +02:00
7a6f819232 (v1.0.1.9006) added generic CLSI rules 2020-04-14 14:12:31 +02:00
d1cb7d3b6f (v1.0.1.9005) as.mo() improvements 2020-04-13 21:09:56 +02:00
219cff403f (v1.0.1.9004) Support dplyr 1.0.0 2020-03-14 14:05:43 +01:00
77656a676c (v1.0.1.9002) PCA unit tests 2020-03-08 11:18:59 +01:00
9fc858f208 (v1.0.1.9001) PCA unit tests 2020-03-08 09:12:11 +01:00
fa0d9c58d9 (v1.0.1.9000) first PCA implementation 2020-03-07 21:48:21 +01:00
f444c24ed3 (v1.0.1) v 1.0.1 2020-02-23 20:56:11 +01:00
0d5e78b2cf (v1.0.0.9007) small doc fix 2020-02-22 17:03:47 +01:00
0595af2801 (v1.0.0.9006) fix WARNING 2020-02-21 21:26:58 +01:00
ea32e9916a (v1.0.0.9005) info printing only in interactive mode 2020-02-21 21:13:38 +01:00
47fe8b7820 (v1.0.0.9004) add example_isolaten_unclean 2020-02-21 16:05:19 +01:00
bb3728f023 (v1.0.0.9003) prepare for short update 2020-02-21 13:13:34 +01:00
6408911922 (v1.0.0.9002) fix lintr 2020-02-20 20:31:42 +01:00
bdb26f624f (v1.0.0.9001) add uti to as.rsi() 2020-02-20 17:21:01 +01:00
c6184a0fb8 (v0.9.0.9029) add uti to as.rsi() 2020-02-20 13:19:23 +01:00
c8981a563e (v0.9.0.9027) documentation fix 2020-02-17 15:07:25 +01:00
5e2b294351 (v0.9.0.9026) update documentation 2020-02-17 14:38:01 +01:00
11f00f8a0a (v0.9.0.9025) update as.rsi documentation 2020-02-16 22:43:56 +01:00
c7a93af3d0 (v0.9.0.9024) global vars fix 2020-02-14 20:03:43 +01:00
9b8b02960e (v0.9.0.9023) EUCAST 2020 guidelines 2020-02-14 19:54:13 +01:00
5a98e6b777 (v0.9.0.9022) inheritance fix 2020-02-10 14:18:15 +01:00
b4356a299c (v0.9.0.9021) inheritance fix 2020-02-10 12:25:02 +01:00
c7a76ba713 (v0.9.0.9020) as.mo() improvement 2020-02-09 22:04:29 +01:00
4e1c16c5a5 (v0.9.0.9019) website update 2020-02-01 15:09:36 +01:00
f152ab9a48 (v0.9.0.9018) Remove mo_history 2020-01-31 23:27:38 +01:00
1b80773c22 (v0.9.0.9017) documentation fix 2020-01-27 19:30:26 +01:00
a13c62e6e8 (v0.9.0.9016) Support SNOMED codes 2020-01-27 19:14:23 +01:00
42b079cdb7 (v0.9.0.9015) Fix for as.rsi.disk() 2020-01-27 11:37:00 +01:00
9a3891efe4 (v0.9.0.9014) Machine reading guidelines 2020-01-27 11:05:39 +01:00
423d1d3c41 (v0.9.0.9013) Support for LOINC codes 2020-01-26 20:38:54 +01:00
449d9bde35 (v0.9.0.9012) Support for LOINC codes 2020-01-26 20:20:00 +01:00
19172b1d48 (v0.9.0.9011) Support R 4.0 2020-01-15 16:40:34 +01:00
895e97c310 (v0.9.0.9010) Support R 4.0 2020-01-15 15:24:08 +01:00
64f5ceef03 (v0.9.0.9009) antibiotics data set update 2020-01-08 11:30:33 +01:00
ced1a7b7fa (v0.9.0.9008) Happy new year! Add lifecycles 2020-01-05 17:22:09 +01:00
f4669889e5 (v0.9.0.9007) website update 2019-12-27 11:56:54 +01:00
db5dfff0ca (v0.9.0.9006) added CITATION file 2019-12-22 11:43:38 +01:00
ba3ce77f02 (v0.9.0.9005) as.mo for G. species 2019-12-21 10:56:06 +01:00
cc8cd043e1 (v0.9.0.9004) website fix 2019-12-20 21:06:39 +01:00
2db2a2458a (v0.9.0.9003) as.mo() speedup for fullnames 2019-12-20 15:05:58 +01:00
f7eb6e4107 (v0.9.0.9002) website updates 2019-12-16 11:08:25 +01:00
a7e538e562 (v0.9.0) website fixes 2019-11-30 13:31:12 +01:00
56ce9bf665 (v0.9.0) website fixes 2019-11-30 12:01:50 +01:00
bb2ed55842 (v0.9.0) v0.9.0 2019-11-29 19:43:23 +01:00
9feef53bde (v0.8.0.9037) complete documentation rewrite 2019-11-28 23:00:37 +01:00
c5f00f4a9f (v0.8.0.9036) complete documentation rewrite 2019-11-28 22:32:17 +01:00
7c28b392b1 (v0.8.0.9035) add more mo codes 2019-11-24 22:48:56 +01:00
e53cc4990c (v0.8.0.9034) add cid to antivirals 2019-11-23 12:39:57 +01:00
267320f15f (v0.8.0.9033) antivirals data set, cleanup 2019-11-18 12:10:47 +01:00
67f3f4387b (v0.8.0.9032) fix regex error 2019-11-15 16:50:46 +01:00
09e2730b53 (v0.8.0.9031) as.mo() improvements 2019-11-15 15:25:03 +01:00