|
|
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 |
|
|
|
c19095a3d5
|
(v1.3.0.9026) eucast expert rules 3.2
|
2020-09-24 00:30:11 +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 |
|
|
|
74a172ef55
|
(v1.3.0.9010) S3 extensions without dependencies
|
2020-08-28 21:55:47 +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 |
|
|
|
08d62bb5d5
|
(v1.3.0.9002) intrinsic_resistant data set
|
2020-08-14 13:36:10 +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 |
|
|
|
76fc8e1b14
|
(v1.2.0.9026) move to github
|
2020-07-08 14:48:06 +02:00 |
|
|
|
93a158aebd
|
(v1.2.0.9011) mo_domain(), improved error handling
|
2020-06-22 11:18:40 +02:00 |
|
|
|
ac12392da3
|
(v1.2.0.9008) ab_class improvement
|
2020-06-17 15:14:37 +02:00 |
|
|
|
b44e2c9202
|
v1.2.0
|
2020-05-28 16:48:55 +02:00 |
|
|
|
86d44054f0
|
(v1.1.0.9020) updated taxonomy
|
2020-05-27 16:37:49 +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 |
|
|
|
7f3da74b17
|
(v1.1.0.9004) lose dependencies
|
2020-05-16 13:05:47 +02:00 |
|
|
|
b040185269
|
(v1.1.0.9000) CLSI as.rsi() fix, better vctrs support, new CI
|
2020-04-29 14:33:44 +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 |
|
|
|
9b8b02960e
|
(v0.9.0.9023) EUCAST 2020 guidelines
|
2020-02-14 19:54:13 +01:00 |
|
|
|
c7a76ba713
|
(v0.9.0.9020) as.mo() improvement
|
2020-02-09 22:04:29 +01:00 |
|
|
|
f152ab9a48
|
(v0.9.0.9018) Remove mo_history
|
2020-01-31 23:27:38 +01:00 |
|
|
|
a13c62e6e8
|
(v0.9.0.9016) Support SNOMED codes
|
2020-01-27 19:14:23 +01:00 |
|
|
|
449d9bde35
|
(v0.9.0.9012) Support for LOINC codes
|
2020-01-26 20:20:00 +01:00 |
|
|
|
ced1a7b7fa
|
(v0.9.0.9008) Happy new year! Add lifecycles
|
2020-01-05 17:22:09 +01:00 |
|
|
|
ba3ce77f02
|
(v0.9.0.9005) as.mo for G. species
|
2019-12-21 10:56:06 +01:00 |
|
|
|
2db2a2458a
|
(v0.9.0.9003) as.mo() speedup for fullnames
|
2019-12-20 15:05:58 +01:00 |
|
|
|
c5f00f4a9f
|
(v0.8.0.9036) complete documentation rewrite
|
2019-11-28 22:32:17 +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 |
|
|
|
29e448883d
|
(v0.8.0.9008) new verbose mode for MDROs
|
2019-11-03 22:24:42 +01:00 |
|
|
|
412077a6f2
|
(v0.8.0.9005) fix unit tests
|
2019-10-26 22:21:26 +02:00 |
|
|
|
3e5ab53209
|
(v0.8.0.9002) eucast_rules() fix for S. maltophilia
|
2019-10-23 14:48:25 +02:00 |
|
|
|
00cdb498a0
|
(v0.7.1.9102) lintr
|
2019-10-11 17:21:02 +02:00 |
|
|
|
c8f6b97847
|
(v0.7.1.9100) bug_drug speed, MIC levels
|
2019-10-08 22:21:33 +02:00 |
|
|
|
8bc4081b03
|
(v0.7.1.9092) as.ab() improvements
|
2019-10-04 15:36:12 +02:00 |
|
|
|
edb599ae0b
|
(v0.7.1.9091) percentage from clean pkg
|
2019-09-30 16:45:36 +02:00 |
|
|
|
38336d7408
|
(v0.7.1.9086) small fix
|
2019-09-23 23:00:18 +02:00 |
|
|
|
ad5f211a8f
|
(v0.7.1.9085) Salmonella fix
|
2019-09-23 21:24:37 +02:00 |
|
|
|
76dc948067
|
(v0.7.1.9084) CI fix
|
2019-09-23 20:55:54 +02:00 |
|
|
|
8ce252fbc5
|
(v0.7.1.9083) LIS code improvement
|
2019-09-23 17:32:05 +02:00 |
|
|
|
64d9829030
|
(v0.7.1.9081) bug_drug fixes
|
2019-09-23 13:53:50 +02:00 |
|
|
|
57b0bd92a0
|
(v0.7.1.9079) small fixes
|
2019-09-22 12:41:45 +02:00 |
|
|
|
46b61e9a70
|
(v0.7.1.9078) unit tests
|
2019-09-20 14:50:02 +02:00 |
|
|
|
40e6b3e8f6
|
(v0.7.1.9077) mo codes fix
|
2019-09-20 14:18:29 +02:00 |
|
|
|
3596adb295
|
(v0.7.1.9076) mo codes
|
2019-09-20 12:33:05 +02:00 |
|
|
|
e2aa4f996b
|
(v0.7.1.9075) new microorganism codes
|
2019-09-18 15:46:09 +02:00 |
|
|
|
f553a08a7b
|
(v0.7.1.9074) CI updates
|
2019-09-16 12:00:56 +02:00 |
|
|
|
398c5bdc4f
|
(v0.7.1.9073) as.mo() self-learning algorithm
|
2019-09-15 22:57:30 +02:00 |
|
|
|
cd178ee569
|
(v0.7.1.9072) key_antibiotics() for foreign systems
|
2019-09-12 15:08:53 +02:00 |
|
|
|
c7be72f0ce
|
(v0.7.1.9069) documentation update
|
2019-09-01 13:16:57 +02:00 |
|
|
|
7a6fce4eb8
|
(v0.7.1.9062) mo/ab assignment improvements
|
2019-08-26 16:02:03 +02:00 |
|
|
|
7c069145ac
|
(v0.7.1.9058) as.mo() improvement
|
2019-08-20 11:40:54 +02:00 |
|
|
|
920212e815
|
(v0.7.1.9056) mo and ab subsetting
|
2019-08-14 14:57:06 +02:00 |
|
|
|
7108454ba5
|
(v0.7.1.9055) algorithm improvements
|
2019-08-13 16:15:08 +02:00 |
|
|
|
5f2733349e
|
(v0.7.1.9038) mo algorithm inprovements
|
2019-08-12 19:07:15 +02:00 |
|
|
|
bd252a2984
|
(v0.7.1.9036) preserve ab/mo classes in subsetting
|
2019-08-12 14:48:09 +02:00 |
|
|
|
1d423cca89
|
(v0.7.1.9035) cephalosporins and unit tests
|
2019-08-11 19:07:26 +02:00 |
|
|
|
6a349bf757
|
(v0.7.1.9032) eucast_rules() improvements
|
2019-08-09 14:28:46 +02:00 |
|
|
|
1ce4b72dd2
|
(v0.7.1.9031) include_unknown for first_isolate()
|
2019-08-08 22:39:42 +02:00 |
|
|
|
90c874025a
|
(v0.7.1.9027) tibble printing
|
2019-08-07 15:37:39 +02:00 |
|
|
|
3a1f960f89
|
(v0.7.1.9024) eucast_rules() fix, new MOs
|
2019-08-06 14:39:22 +02:00 |
|
|
|
85b62aaf8f
|
(v0.7.1.9023) wrong percentage in as.mo()
|
2019-08-04 17:41:12 +02:00 |
|
|
|
b7e2d7b9b8
|
(v0.7.1.9016) deps
|
2019-07-29 17:34:57 +02:00 |
|
|
|
b15d59cf03
|
(v0.7.1.9009) note for WHOCC
|
2019-07-09 11:22:46 +02:00 |
|
|
|
4ff20af123
|
(v0.7.1.9006) new rsi calculations, atc class removal
|
2019-07-02 16:48:52 +02:00 |
|
|
|
156d550895
|
(v0.7.1.9005) new rsi calculations, atc class removal
|
2019-07-01 14:03:15 +02:00 |
|
|
|
65c6702b21
|
(v0.7.1.9004) atc class removal
|
2019-06-27 11:57:45 +02:00 |
|
|
|
453c159eac
|
0.7.1
|
2019-06-23 14:49:17 +02:00 |
|
|
|
c9156c004a
|
(v0.7.0.9013) mo_synonym fix
|
2019-06-22 14:49:12 +02:00 |
|
|
|
699e87ab4a
|
(v0.7.0.9007) renamed notes fix
|
2019-06-12 16:08:20 +02:00 |
|
|
|
ec48f1d83b
|
(v0.7.0.9003) scale fix
|
2019-06-08 23:50:06 +02:00 |
|
|
|
f50d3a5ba1
|
(v0.7.0.9002) scale fix
|
2019-06-08 15:00:28 +02:00 |
|
|
|
f02679fb63
|
(v0.7.0.9001) new pathovars, small fixes
|
2019-06-07 22:47:37 +02:00 |
|
|
|
270aa0dd33
|
v0.7.0
|
2019-06-03 17:45:22 +02:00 |
|
|
|
bd73988f15
|
(v0.6.1.9053) prerelease fixes
|
2019-06-02 19:23:19 +02:00 |
|
|
|
2667fff8a7
|
(v0.6.1.9050) support staged install
|
2019-06-01 20:40:49 +02:00 |
|
|
|
27380fa021
|
fixes for microorganisms.codes
|
2019-05-28 16:50:40 +02:00 |
|
|
|
4ca00e1868
|
speed improvement eucast_rules(), support more old MO codes
|
2019-05-20 12:00:18 +02:00 |
|
|
|
4c3cf85a65
|
ab_info, other bug fixes
|
2019-05-16 21:20:00 +02:00 |
|
|
|
0dc0715dc6
|
CI tests
|
2019-05-13 12:21:57 +02:00 |
|
|
|
68cc7ef0d0
|
new antibiotics
|
2019-05-10 16:44:59 +02:00 |
|
|
|
51fdc5d6cc
|
self-learning off
|
2019-04-06 09:38:23 +02:00 |
|
|
|
fbc9191b13
|
new EUCAST rules algorithm
|
2019-04-05 18:47:39 +02:00 |
|
|
|
b25f2d6213
|
v0.6.1
|
2019-03-28 21:33:28 +01:00 |
|
|
|
29f444543d
|
added Becker 2019
|
2019-03-26 14:24:03 +01:00 |
|
|
|
c6a12266e7
|
DSMZ data
|
2019-03-18 14:29:41 +01:00 |
|
|
|
e18a1f1f17
|
as.mo improvement
|
2019-03-15 17:36:42 +01:00 |
|
|
|
fdffc2791b
|
memory for as.mo()
|
2019-03-15 13:57:25 +01:00 |
|
|
|
504a042fba
|
uncertainty levels, new WHONET codes
|
2019-03-12 12:19:27 +01:00 |
|
|
|
b319b89750
|
WHONET fix
|
2019-03-09 08:21:00 +01:00 |
|
|
|
0c0c6e289b
|
small as.mo fix
|
2019-03-06 14:39:02 +01:00 |
|
|
|
74e0ae21fd
|
con WHONET, filter ab class
|
2019-03-05 22:47:42 +01:00 |
|
|
|
e835525cf6
|
unknown codes, rsi fix
|
2019-03-02 22:47:04 +01:00 |
|
|
|
c5efb272fd
|
mo_source improvement
|
2019-03-01 09:34:04 +01:00 |
|
|
|
2565b60024
|
rlang dependency, new fungi
|
2019-02-28 13:56:28 +01:00 |
|
|
|
cf3bdb54c7
|
global var fix
|
2019-02-27 19:02:47 +01:00 |
|
|
|
642f6571fe
|
as.mo fix
|
2019-02-27 14:22:07 +01:00 |
|
|
|
54162522bd
|
age_groups fix
|
2019-02-27 11:36:12 +01:00 |
|
|
|
f9ded23023
|
as.mo improvement
|
2019-02-26 12:33:26 +01:00 |
|
|
|
f25a4b3679
|
as.mo improvements
|
2019-02-25 16:07:21 +01:00 |
|
|
|
c506d2893b
|
as.mo improvements
|
2019-02-25 15:52:32 +01:00 |
|
|
|
0ec76cfa98
|
as.mo improvement
|
2019-02-25 10:42:57 +01:00 |
|
|
|
e65d1a3036
|
as.mo improvement
|
2019-02-23 21:49:02 +01:00 |
|
|
|
f16a152d06
|
as.mo improvements
|
2019-02-23 18:08:28 +01:00 |
|
|
|
1a6314769b
|
as.mo improvement
|
2019-02-23 16:02:31 +01:00 |
|
|
|
6c542268be
|
unit tests
|
2019-02-21 23:32:30 +01:00 |
|
|
|
68a9a35ed6
|
algorithm update
|
2019-02-21 18:55:52 +01:00 |
|
|
|
fb1fc3686c
|
Catalogue of life
|
2019-02-20 00:04:48 +01:00 |
|
|
|
54f8258f8c
|
Catalogue of Life, replaces ITIS
|
2019-02-18 02:33:37 +01:00 |
|
|
|
ed30312048
|
mo codes for WHONET
|
2019-02-08 16:06:54 +01:00 |
|
|
|
f4ff98b470
|
WHO update, antibiotics update
|
2019-01-25 13:18:41 +01:00 |
|
|
|
9529d097b6
|
as.mo
|
2019-01-21 21:24:40 +01:00 |
|
|
|
46dcc7e2e8
|
set_mo_source
|
2019-01-21 15:53:01 +01:00 |
|
|
|
3661df7365
|
direct warning if failing as.mo
|
2019-01-12 16:45:20 +01:00 |
|
|
|
5aad26035c
|
edited g.test
|
2019-01-12 11:06:58 +01:00 |
|
|
|
193a2d2863
|
EUCAST update, as.mo bugfix for empty vlaues
|
2019-01-08 16:23:45 +01:00 |
|
|
|
0205b6178d
|
guess_mo deprecation
|
2019-01-06 16:40:55 +01:00 |
|
|
|
6b2d464f8c
|
big website update, licence txt update
|
2019-01-02 23:24:07 +01:00 |
|
|
|
0b8084871d
|
dplyr 0.8.0 support, fixes #7
|
2018-12-22 22:39:34 +01:00 |
|
|
|
b937662a97
|
limits for scale_y_percent - Licence update
|
2018-12-16 22:45:12 +01:00 |
|
|
|
ecebc60bfd
|
C stack error fix
|
2018-12-14 11:44:15 +01:00 |
|
|
|
857f565db0
|
reorganised notes and warnings
|
2018-12-14 10:52:20 +01:00 |
|
|
|
01a6d56334
|
add kingdom to mo_taxonomy
|
2018-12-10 21:47:25 +01:00 |
|
|
|
8e8a9cd190
|
AI improvements
|
2018-12-07 12:04:55 +01:00 |
|
|
|
74a7f4453b
|
small CI fix
|
2018-12-06 16:07:06 +01:00 |
|
|
|
60fe98bbbd
|
better as.mo handling
|
2018-12-06 14:36:39 +01:00 |
|
|
|
31e977937d
|
fix for as.mo and freq
|
2018-11-30 12:05:59 +01:00 |
|
|
|
9ddf6dc530
|
support A. species for as.mo, cleanup
|
2018-11-24 20:25:09 +01:00 |
|
|
|
fab64e6728
|
read.4D improvements
|
2018-11-15 12:42:35 +01:00 |
|
|
|
6b0f4ffbd4
|
new kingdom
|
2018-11-09 13:11:54 +01:00 |
|
|
|
40a159e78d
|
more unit tests
|
2018-11-02 10:27:57 +01:00 |
|
|
|
5476fecc73
|
eucast update
|
2018-11-01 20:23:33 +01:00 |
|
|
|
9cd4ab928a
|
speed improvement as.mo, freq title
|
2018-10-31 12:10:49 +01:00 |
|
|
|
1bf8dc2983
|
as.mo speedup: assigned to namespace
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2018-10-29 17:26:17 +01:00 |
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86b03577a7
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fix for as.mo, added also_single_tested
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2018-10-19 13:53:31 +02:00 |
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b464dd524a
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new verbose
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2018-10-19 00:17:03 +02:00 |
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5b5b95a47b
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count_all and some fixes
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2018-10-12 16:35:18 +02:00 |
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67521394f6
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more unit tests
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2018-10-09 15:41:44 +02:00 |
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95c9fdc552
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CRAN fixes for release 0.4.0
https://cran.r-project.org/web/checks/check_results_AMR.html
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2018-10-09 13:53:33 +02:00 |
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6d761436f7
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benchmarks on readme and speed improvement for direct mo codes
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2018-10-01 16:26:02 +02:00 |
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ed17db0263
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renamed year columns to ref
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2018-10-01 14:44:40 +02:00 |
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3119a221e5
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authors from ITIS, diff for freq
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2018-10-01 11:39:43 +02:00 |
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2b0080995e
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speed improvement for as.mo, more old taxonomic names
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2018-09-27 23:23:48 +02:00 |
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450992baea
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new: 1680 old taxonomic names
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2018-09-25 16:44:40 +02:00 |
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9c566585b0
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first inclusion of ITIS data
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2018-09-24 23:33:29 +02:00 |
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b792a2754e
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added prevalence column and alterted as.mo algorith to use it, added ab_name as alias
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2018-09-16 16:43:29 +02:00 |
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b0ca49d68d
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small improvement for is.rsi.eligible, more unit tests
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2018-09-14 11:54:01 +02:00 |
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cf5711fb0b
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algorithm improvement
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2018-09-14 10:31:21 +02:00 |
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cb0d74a4f0
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support for French and Italian, added quote to freq
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2018-09-10 15:45:25 +02:00 |
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b83e6a9380
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algoritm improvement, removed all Catabacter except for C. hongkongensis
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2018-09-10 11:40:54 +02:00 |
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4816419f0c
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AI improvements for microorganisms
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2018-09-09 12:11:44 +02:00 |
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26f5be0033
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support for portuguese, language determination based on system
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2018-09-08 16:06:47 +02:00 |
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c5073f2fd1
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small fix for microorganisms data set
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2018-09-06 16:50:03 +02:00 |
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de36b0be23
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fix for empty values in mo_property
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2018-09-05 12:21:27 +02:00 |
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e39a9a8b05
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added mo_shortname
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2018-09-05 10:51:46 +02:00 |
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b388e3fee7
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Support for German and Spanish microorganism properties, cleanup
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2018-09-04 11:33:30 +02:00 |
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75fe4d401f
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new MOs, cleanup
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2018-09-01 21:19:46 +02:00 |
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5965d3c794
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replaced bactid by mo
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2018-08-31 13:36:19 +02:00 |
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