 dr. M.S. (Matthijs) Berends
|
4be54d608c
|
(v1.0.1.9008) RIVM abbreviations for drugs
|
2020-04-14 20:38:09 +02:00 |
|
dr. M.S. (Matthijs) Berends
|
219cff403f
|
(v1.0.1.9004) Support dplyr 1.0.0
|
2020-03-14 14:05:43 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
77656a676c
|
(v1.0.1.9002) PCA unit tests
|
2020-03-08 11:18:59 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
9fc858f208
|
(v1.0.1.9001) PCA unit tests
|
2020-03-08 09:12:11 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
0595af2801
|
(v1.0.0.9006) fix WARNING
|
2020-02-21 21:26:58 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
ea32e9916a
|
(v1.0.0.9005) info printing only in interactive mode
|
2020-02-21 21:13:38 +01:00 |
|
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
|
c6184a0fb8
|
(v0.9.0.9029) add uti to as.rsi()
|
2020-02-20 13:19:23 +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
|
f152ab9a48
|
(v0.9.0.9018) Remove mo_history
|
2020-01-31 23:27:38 +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
|
449d9bde35
|
(v0.9.0.9012) Support for LOINC codes
|
2020-01-26 20:20:00 +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
|
ba3ce77f02
|
(v0.9.0.9005) as.mo for G. species
|
2019-12-21 10:56:06 +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
|
267320f15f
|
(v0.8.0.9033) antivirals data set, cleanup
|
2019-11-18 12:10:47 +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
|
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
|
1de1cc58f2
|
ci fix
|
2019-11-06 16:22:44 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
1c4f91ab74
|
ci fix
|
2019-11-06 16:08:58 +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
|
5345d2759a
|
(v0.8.0.9012) mdro improvement
|
2019-11-05 11:28:52 +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
|
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
|
3e5ab53209
|
(v0.8.0.9002) eucast_rules() fix for S. maltophilia
|
2019-10-23 14:48:25 +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
|
00cdb498a0
|
(v0.7.1.9102) lintr
|
2019-10-11 17:21:02 +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
|
4e9c4c1b4e
|
(v0.7.1.9096) German guideline for mdro()
|
2019-10-07 14:32:06 +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
|
76dc948067
|
(v0.7.1.9084) CI fix
|
2019-09-23 20:55:54 +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
|
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
|
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
|
e2b78fa428
|
(v0.7.1.9066) bug-drug fix
|
2019-08-27 23:00:00 +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
|
e46cb0399f
|
(v0.7.1.9059) bug_drug_combinations
|
2019-08-25 22:53:22 +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
|
7108454ba5
|
(v0.7.1.9055) algorithm improvements
|
2019-08-13 16:15:08 +02:00 |
|
dr. M.S. (Matthijs) Berends
|
6c4822164c
|
Merge branch 'premaster'
|
2019-08-12 19:32:30 +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
|
bd252a2984
|
(v0.7.1.9036) preserve ab/mo classes in subsetting
|
2019-08-12 14:48:09 +02:00 |
|
dr. M.S. (Matthijs) Berends
|
990709c151
|
Merge branch 'premaster'
|
2019-08-11 22:23:18 +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
|
b790030c5f
|
Merge branch 'premaster'
|
2019-08-09 09:33:26 +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
|
43e81bda75
|
(v0.7.1.9029) unit test
Merge branch 'premaster'
# Conflicts:
# tests/testthat/test-resistance_predict.R
|
2019-08-07 19:22:46 +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
|
e5cc09dbc0
|
Merge branch 'premaster'
|
2019-08-07 16:27:37 +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
|
3e9a263fc4
|
Merge branch 'master' of https://gitlab.com/msberends/AMR
|
2019-08-06 16:16:57 +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
|
f404db85d4
|
Merge branch 'premaster' of https://gitlab.com/msberends/AMR into premaster
|
2019-08-04 13:32:36 +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
|
b730920bb3
|
Merge branch 'premaster' of https://gitlab.com/msberends/AMR into premaster
|
2019-07-29 23:48:34 +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
|
7bd29cb8ef
|
codecov update
|
2019-07-11 16:08:56 +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
|
a56a87c7db
|
quickfix
|
2019-07-09 20:26:42 +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
|
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
|
9c39c35f86
|
(v0.7.0.9010) mo_synonyms, plot/barplot fixes
|
2019-06-16 21:42:40 +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
|
8f674e19bb
|
(v0.7.0.9005) ab algorithm update
|
2019-06-11 14:18:25 +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
|
f02679fb63
|
(v0.7.0.9001) new pathovars, small fixes
|
2019-06-07 22:47:37 +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
|
5608b27c7c
|
(v0.6.1.9051) support staged install
|
2019-06-01 20:54:56 +02:00 |
|
dr. M.S. (Matthijs) Berends
|
4bac768557
|
(v0.6.1.9048) data creation fox
|
2019-05-31 21:01:14 +02:00 |
|
dr. M.S. (Matthijs) Berends
|
0a6580b4eb
|
(v0.6.1.9047) ggplot fix
|
2019-05-31 20:48:22 +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
|
f03f71eced
|
(v0.6.1.9045) age test fix
|
2019-05-31 14:40:15 +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
|
07d26cd485
|
faster determination of abx
|
2019-05-20 19:12:41 +02:00 |
|
dr. M.S. (Matthijs) Berends
|
4ca00e1868
|
speed improvement eucast_rules(), support more old MO codes
|
2019-05-20 12:00:18 +02:00 |
|
dr. M.S. (Matthijs) Berends
|
4c3cf85a65
|
ab_info, other bug fixes
|
2019-05-16 21:20:00 +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
|
c4aa92b4a7
|
fixed unit test
|
2019-05-13 13:03:30 +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
|
461eec9bac
|
cfta streptococci, codecov.yml
|
2019-04-09 14:59:17 +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
|
713290a9a6
|
v0.6.1
|
2019-03-28 22:05:03 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
b25f2d6213
|
v0.6.1
|
2019-03-28 21:33:28 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
8a1d384d9c
|
ci fixes
|
2019-03-26 15:34:04 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
afd12d5486
|
ci fixes
|
2019-03-26 14:42:56 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
29f444543d
|
added Becker 2019
|
2019-03-26 14:24:03 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
c6a12266e7
|
DSMZ data
|
2019-03-18 14:29:41 +01:00 |
|
dr. M.S. (Matthijs) Berends
|
e18a1f1f17
|
as.mo improvement
|
2019-03-15 17:36:42 +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
|
74e0ae21fd
|
con WHONET, filter ab class
|
2019-03-05 22:47:42 +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
|
cf3bdb54c7
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global var fix
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2019-02-27 19:02:47 +01:00 |
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dr. M.S. (Matthijs) Berends
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95c49fdf79
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global var fix
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2019-02-27 17:39:39 +01:00 |
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dr. M.S. (Matthijs) Berends
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54162522bd
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age_groups fix
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2019-02-27 11:36:12 +01:00 |
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dr. M.S. (Matthijs) Berends
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7f155c4e3a
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small units test
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2019-02-22 00:19:37 +01:00 |
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dr. M.S. (Matthijs) Berends
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6c542268be
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unit tests
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2019-02-21 23:32:30 +01:00 |
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dr. M.S. (Matthijs) Berends
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bd2a256969
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unit test
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2019-02-21 19:15:17 +01:00 |
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dr. M.S. (Matthijs) Berends
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68a9a35ed6
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algorithm update
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2019-02-21 18:55:52 +01:00 |
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dr. M.S. (Matthijs) Berends
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c6e57ca456
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website update
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2019-02-20 14:18:11 +01:00 |
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dr. M.S. (Matthijs) Berends
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616c8ab1ae
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mo_property
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2019-02-20 00:34:38 +01:00 |
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dr. M.S. (Matthijs) Berends
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d4f5d282ff
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appveyor fix
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2019-02-20 00:25:06 +01:00 |
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dr. M.S. (Matthijs) Berends
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54f8258f8c
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Catalogue of Life, replaces ITIS
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2019-02-18 02:33:37 +01:00 |
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dr. M.S. (Matthijs) Berends
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ed30312048
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mo codes for WHONET
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2019-02-08 16:06:54 +01:00 |
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dr. M.S. (Matthijs) Berends
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587e00b7be
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is.rsi.eligible update
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2019-02-04 12:24:07 +01:00 |
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dr. M.S. (Matthijs) Berends
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6aae206320
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WHONET/EARS-Net support
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2019-01-29 00:06:50 +01:00 |
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dr. M.S. (Matthijs) Berends
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f6336fdd89
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quasiquotation for freq()
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2019-01-28 11:20:32 +01:00 |
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dr. M.S. (Matthijs) Berends
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f836722269
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atc_ functions
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2019-01-26 23:22:56 +01:00 |
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dr. M.S. (Matthijs) Berends
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f4ff98b470
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WHO update, antibiotics update
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2019-01-25 13:18:41 +01:00 |
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dr. M.S. (Matthijs) Berends
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46dcc7e2e8
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set_mo_source
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2019-01-21 15:53:01 +01:00 |
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dr. M.S. (Matthijs) Berends
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046d195064
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resistance predict
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2019-01-15 12:45:24 +01:00 |
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dr. M.S. (Matthijs) Berends
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5aad26035c
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edited g.test
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2019-01-12 11:06:58 +01:00 |
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dr. M.S. (Matthijs) Berends
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641d866db2
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guess_ab_col, benchmarks
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2019-01-11 20:37:23 +01:00 |
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dr. M.S. (Matthijs) Berends
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0205b6178d
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guess_mo deprecation
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2019-01-06 16:40:55 +01:00 |
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dr. M.S. (Matthijs) Berends
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80ea555663
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guess_ab
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2019-01-03 23:56:19 +01:00 |
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dr. M.S. (Matthijs) Berends
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6b2d464f8c
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big website update, licence txt update
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2019-01-02 23:24:07 +01:00 |
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dr. M.S. (Matthijs) Berends
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2e4d703338
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eucast rules fix, 1st isolate fix, website update
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2018-12-31 01:48:53 +01:00 |
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dr. M.S. (Matthijs) Berends
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48f097c5b2
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roxygen2 dep
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2018-12-30 09:31:54 +01:00 |
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dr. M.S. (Matthijs) Berends
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92a32b62a7
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new website, freq updates
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2018-12-29 22:24:19 +01:00 |
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dr. M.S. (Matthijs) Berends
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0b8084871d
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dplyr 0.8.0 support, fixes #7
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2018-12-22 22:39:34 +01:00 |
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dr. M.S. (Matthijs) Berends
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b937662a97
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limits for scale_y_percent - Licence update
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2018-12-16 22:45:12 +01:00 |
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dr. M.S. (Matthijs) Berends
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2018d5b477
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age and age_groups
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2018-12-15 22:40:07 +01:00 |
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dr. M.S. (Matthijs) Berends
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e4737d3add
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date transformation fix for tibbles
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2018-12-14 09:31:53 +01:00 |