dr. M.S. (Matthijs) Berends
127892430d
(v2.1.1.9078) 12 new formatting formats for antibiogram(), prepare for Bayesian WISCA
2024-09-22 11:45:51 +02:00
dr. M.S. (Matthijs) Berends
28bf91cbf5
(v2.1.1.9077) fix logos
2024-09-19 14:40:19 +02:00
dr. M.S. (Matthijs) Berends
82239503ee
(v2.1.1.9076)
2024-09-19 14:22:09 +02:00
dr. M.S. (Matthijs) Berends
a88472a263
test new git hook
2024-09-19 14:20:03 +02:00
dr. M.S. (Matthijs) Berends
29756977cf
no-verify
2024-09-19 13:58:41 +02:00
dr. M.S. (Matthijs) Berends
4e96a56b6a
(v2.1.1.9073) unit tests
2024-09-19 13:57:36 +02:00
dr. M.S. (Matthijs) Berends
ef8ef28650
(v2.1.1.9072)
2024-09-19 11:46:17 +02:00
dr. M.S. (Matthijs) Berends
ddb23b6e73
(v2.1.1.9071) update veterinary SIR interpretation, add only_fungi
2024-09-19 11:44:56 +02:00
dr. M.S. (Matthijs) Berends
573c0346ed
(v2.1.1.9070) fix for mo_current mo (no-verify)
2024-07-19 18:05:49 +02:00
dr. M.S. (Matthijs) Berends
83907c9c65
add files (no-verify)
2024-07-17 14:31:09 +02:00
dr. M.S. (Matthijs) Berends
7258a491b9
(v2.1.1.9068) fix for mo_url() and as.mo() for synonyms
2024-07-17 14:29:55 +02:00
dr. M.S. (Matthijs) Berends
63f6790c58
add (no-verify)
2024-07-16 16:10:38 +02:00
dr. M.S. (Matthijs) Berends
b94dac770c
(v2.1.1.9066) git hook fix?
2024-07-16 16:09:33 +02:00
dr. M.S. (Matthijs) Berends
ff03bb6471
(v2.1.1.9065) unit tests 2
2024-07-16 15:58:18 +02:00
dr. M.S. (Matthijs) Berends
7f344836ea
(v2.1.1.9064) unit tests
2024-07-16 15:55:58 +02:00
dr. M.S. (Matthijs) Berends
640888f408
(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
2024-07-16 14:53:17 +02:00
dr. M.S. (Matthijs) Berends
4f9db23684
check for windows unit test (no-check)
2024-06-23 16:18:42 +02:00
dr. M.S. (Matthijs) Berends
82585901a7
(v2.1.1.9061) animal host fix
2024-06-19 15:41:45 +02:00
dr. M.S. (Matthijs) Berends
c67d003e9e
(v2.1.1.9060) SDD results now in as.sir()
2024-06-19 15:08:23 +02:00
dr. M.S. (Matthijs) Berends
0c3d81f32e
(v2.1.1.9059) documentation fix
2024-06-17 22:26:05 +02:00
dr. M.S. (Matthijs) Berends
1bc2e04e1c
(v2.1.1.9058) fix hosts, add translations
2024-06-17 22:19:38 +02:00
dr. M.S. (Matthijs) Berends
a4dc37a4e4
(v2.1.1.9057) fix for missing breakpoints
2024-06-17 16:52:12 +02:00
dr. M.S. (Matthijs) Berends
d9e66fb118
(v2.1.1.9056) example fix
2024-06-17 14:52:18 +02:00
dr. M.S. (Matthijs) Berends
1e65b5a289
(v2.1.1.9055) example fix
2024-06-17 14:36:40 +02:00
dr. M.S. (Matthijs) Berends
13baf8d7be
(v2.1.1.9054) fix examples
2024-06-17 13:52:02 +02:00
dr. M.S. (Matthijs) Berends
2dee1d71dc
(v2.1.1.9053) add verbose to as.sir(), unit test fix
2024-06-17 10:38:45 +02:00
dr. M.S. (Matthijs) Berends
68f7795481
(v2.1.1.9052) unit test fix
2024-06-16 20:53:50 +02:00
dr. M.S. (Matthijs) Berends
4ffac7e22d
(v2.1.1.9051) fix VGS mo code
2024-06-16 11:28:56 +02:00
dr. M.S. (Matthijs) Berends
bdbf5198a2
(v2.1.1.9050) vctrs fix for sir, small documentation fixes
2024-06-15 15:33:49 +02:00
dr. M.S. (Matthijs) Berends
9bf7584d58
(v2.1.1.9049) new 2024 breakpoints, add AMO, set NI instead of N
2024-06-14 22:39:01 +02:00
dr. M.S. (Matthijs) Berends
de17de1be9
(v2.1.1.9048) vctrs update for sir
2024-06-13 20:55:17 +02:00
dr. M.S. (Matthijs) Berends
3179216c81
(v2.1.1.9047) unit test and index
2024-06-13 07:37:53 +02:00
dr. M.S. (Matthijs) Berends
cd1b37ff69
(v2.1.1.9046) unit test fix
2024-06-12 14:37:44 +02:00
dr. M.S. (Matthijs) Berends
c753afcd76
(v2.1.1.9045) fix host in animal guidelines
2024-06-12 10:32:43 +02:00
dr. M.S. (Matthijs) Berends
3a54711dfe
(v2.1.1.9044) update website
2024-06-10 15:10:54 +02:00
dr. M.S. (Matthijs) Berends
31207952d3
(v2.1.1.9043) fix sir translation with as.double
2024-06-10 10:34:45 +02:00
dr. M.S. (Matthijs) Berends
a3071cf58b
(v2.1.1.9042) update translations and example isolates
2024-06-09 11:31:04 +02:00
dr. M.S. (Matthijs) Berends
af74e1d4f2
(v2.1.1.9041) antibiotics update
2024-06-08 17:35:25 +02:00
dr. M.S. (Matthijs) Berends
e2acc513a5
(v2.1.1.9040) try to put version number in commit msg
2024-06-07 12:07:07 +02:00
dr. M.S. (Matthijs) Berends
0bda9e9997
try to add version to commit msg
2024-06-04 20:21:12 +02:00
dr. M.S. (Matthijs) Berends
c5981cdeb3
fix unit test
2024-06-04 20:17:54 +02:00
dr. M.S. (Matthijs) Berends
7c1b564648
fix SIR interpretation for uti
2024-05-31 21:24:35 +02:00
dr. M.S. (Matthijs) Berends
60c6c21e45
fix SIR interpretation
2024-05-31 09:50:54 +02:00
dr. M.S. (Matthijs) Berends
ba4dc20cf3
autoplot fix
2024-05-30 16:39:59 +02:00
dr. M.S. (Matthijs) Berends
d4490c7f25
fix sorting of MICs, MIC autoplot titles
2024-05-30 15:50:17 +02:00
dr. M.S. (Matthijs) Berends
c3ce1b551d
rename limit_mic_range() to rescale_mic()
2024-05-24 15:07:41 +02:00
dr. M.S. (Matthijs) Berends
d214f74e25
allow column name for ab in as.sir()
2024-05-20 21:29:13 +02:00
dr. M.S. (Matthijs) Berends
fc269e667d
unit test fix
2024-05-20 18:58:35 +02:00
dr. M.S. (Matthijs) Berends
08a27922a8
new SDD and N for as.sir()
2024-05-20 15:27:04 +02:00
dr. M.S. (Matthijs) Berends
b68f47d985
improved algorithm of as.ab()
2024-05-12 16:24:44 +02:00
dr. M.S. (Matthijs) Berends
1bce7ed3d3
fix git hooks
2024-04-24 11:58:16 +02:00
dr. M.S. (Matthijs) Berends
7f18e66c4e
unit test fix
2024-04-24 11:42:43 +02:00
dr. M.S. (Matthijs) Berends
3e5c7d45c6
update intro logo
2024-04-24 09:58:24 +02:00
dr. M.S. (Matthijs) Berends
25089e811e
correct for high-level abx
2024-04-24 09:50:32 +02:00
dr. M.S. (Matthijs) Berends
0d8a91db49
rename pre-commit hook to pre-commit checks (no-check)
2024-04-23 10:55:48 +02:00
dr. M.S. (Matthijs) Berends
04df6dfcf5
fix website nav header (no-check)
2024-04-23 10:33:26 +02:00
dr. M.S. (Matthijs) Berends
35f095cceb
fixes #148
2024-04-23 09:34:05 +02:00
dr. M.S. (Matthijs) Berends
2899b3c840
new mo_group_members()
2024-04-19 10:18:21 +02:00
dr. M.S. (Matthijs) Berends
7e7bc9d56e
Merge branch 'main' of https://github.com/msberends/AMR
2024-04-08 09:58:54 +02:00
dr. M.S. (Matthijs) Berends
d2c5e4b749
update website colours
2024-04-08 09:55:21 +02:00
dr. M.S. (Matthijs) Berends
94e9a4d99b
update MIC implementation
2024-04-07 20:22:59 +02:00
dr. M.S. (Matthijs) Berends
0039cb05d6
update MIC comparisons
2024-04-05 16:44:43 +02:00
dr. M.S. (Matthijs) Berends
4170def0ec
unit test
2024-03-09 16:46:59 +01:00
dr. M.S. (Matthijs) Berends
bc4f8515e2
new Norwegian link
2024-03-03 23:24:57 +01:00
dr. M.S. (Matthijs) Berends
f2d245b0cb
update navbar colours
2024-03-03 19:07:09 +01:00
dr. M.S. (Matthijs) Berends
46634bfcaa
navbar colour
2024-02-25 16:48:04 +01:00
dr. M.S. (Matthijs) Berends
8d077149fa
new logo
2024-02-25 14:20:43 +01:00
dr. M.S. (Matthijs) Berends
b303662ec6
fix veterinary for R<4
2024-02-24 19:26:35 +01:00
dr. M.S. (Matthijs) Berends
35963ca3dc
vctrs fix
2024-02-24 18:51:37 +01:00
dr. M.S. (Matthijs) Berends
4aa5413641
fix unit test
2024-02-24 18:14:50 +01:00
dr. M.S. (Matthijs) Berends
7be4dabbc0
support veterinary MIC/disk translation
2024-02-24 15:16:52 +01:00
dr. M.S. (Matthijs) Berends
7059568581
fix scale functions
2023-12-03 16:51:54 +01:00
dr. M.S. (Matthijs) Berends
c7461766ce
Remove RSI from package, add extra MIC scale functions
2023-12-03 11:34:48 +01:00
dr. M.S. (Matthijs) Berends
6f417d0ef2
add scale_x_mic()
2023-12-03 01:06:00 +01:00
dr. M.S. (Matthijs) Berends
4c11a7bd9c
v2.1.1
2023-10-22 15:51:27 +02:00
dr. M.S. (Matthijs) Berends
ca72a646d0
scientific notation for MICs
2023-10-20 15:45:00 +02:00
dr. M.S. (Matthijs) Berends
bcab4bc9ba
Fixes #123
2023-10-20 15:07:11 +02:00
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
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
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. 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
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
8179092c57
add XPT files for SAS software
2023-05-12 10:07:55 +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
9de19fdc49
documentation
2023-04-21 10:07:25 +02:00
dr. M.S. (Matthijs) Berends
9148a2dcf4
fix mo_rank() for 'unknown' MOs
2023-04-20 15:20:41 +02:00
