dr. M.S. (Matthijs) Berends
b4e71cdc4f
gitlab ci
2018-10-23 23:17:53 +02:00
dr. M.S. (Matthijs) Berends
d681236791
gitlab ci
2018-10-23 22:55:21 +02:00
dr. M.S. (Matthijs) Berends
19f056a6d7
xml2 dep for gitlab ci
2018-10-23 22:25:53 +02:00
dr. M.S. (Matthijs) Berends
60747e56f0
gitlab fix
2018-10-23 21:37:49 +02:00
dr. M.S. (Matthijs) Berends
9fd38afeb1
CI fix gitlab
2018-10-23 21:26:57 +02:00
dr. M.S. (Matthijs) Berends
f4d6e1dafe
CI fixes
2018-10-23 21:17:05 +02:00
dr. M.S. (Matthijs) Berends
99323e704d
linux deps
2018-10-23 20:38:18 +02:00
dr. M.S. (Matthijs) Berends
0834bdfabc
fix for gitlab pipeline, add covr to appveyor
2018-10-23 20:04:11 +02:00
dr. M.S. (Matthijs) Berends
160e025609
try to fix gitlab pipelines
2018-10-23 19:49:31 +02:00
dr. M.S. (Matthijs) Berends
87757748bd
switch to gitlab
2018-10-23 16:49:40 +02:00
dr. M.S. (Matthijs) Berends
707aa20a37
fixes
2018-10-23 14:59:36 +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
9c56257da1
freq - print title bold in markdown
2018-10-22 13:06:54 +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
032c0d51ef
better verbose in EUCAST
2018-10-19 00:57:10 +02:00
dr. M.S. (Matthijs) Berends
b464dd524a
new verbose
2018-10-19 00:17:03 +02:00
dr. M.S. (Matthijs) Berends
5727800b9a
readme fix
2018-10-18 21:43:12 +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
67521394f6
more unit tests
2018-10-09 15:41:44 +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
6d761436f7
benchmarks on readme and speed improvement for direct mo codes
2018-10-01 16:26:02 +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
a6aa9e95fb
completed old taxonomic names
2018-09-28 20:13:13 +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
2b0080995e
speed improvement for as.mo, more old taxonomic names
2018-09-27 23:23:48 +02:00
dr. M.S. (Matthijs) Berends
450992baea
new: 1680 old taxonomic names
2018-09-25 16:44:40 +02:00
dr. M.S. (Matthijs) Berends
da60f27877
travis cant find knitr vignette builder
2018-09-25 00:36:35 +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
df5d82fff3
unit tests
2018-09-17 21:51:21 +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
d049ec9e69
ggplot2_rsi fix
2018-09-13 14:48:34 +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
4816419f0c
AI improvements for microorganisms
2018-09-09 12:11:44 +02:00
dr. M.S. (Matthijs) Berends
936198372e
translate CoNS
2018-09-08 16:24:12 +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
b8a6c9af19
allow failure on macOS
2018-09-07 10:20:01 +02:00
dr. M.S. (Matthijs) Berends
0de65438b1
vignet fix
2018-09-07 09:32:31 +02:00
dr. M.S. (Matthijs) Berends
c5073f2fd1
small fix for microorganisms data set
2018-09-06 16:50:03 +02:00
dr. M.S. (Matthijs) Berends
de36b0be23
fix for empty values in mo_property
2018-09-05 12:21:27 +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
98ff131680
support for older versions of ggplot2
2018-08-29 16:39:28 +02:00
dr. M.S. (Matthijs) Berends
d654444c8e
re added nrow
2018-08-29 16:35:32 +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
460dee789f
typo
2018-08-24 14:33:35 +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
0c0e538ef4
dependencies
2018-08-23 22:05:17 +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
eee122825c
rlang dep for macOS
2018-08-23 01:18:58 +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
dr. M.S. (Matthijs) Berends
3e87c8f409
count_* functions
2018-08-22 00:02:26 +02:00
dr. M.S. (Matthijs) Berends
8bad33858e
readme typo
2018-08-15 11:12:38 +02:00
dr. M.S. (Matthijs) Berends
bc7e36b533
v0.3.0
2018-08-14 14:06:18 +02:00
dr. M.S. (Matthijs) Berends
6bab01948e
v0.3.0
2018-08-14 13:25:24 +02:00
dr. M.S. (Matthijs) Berends
1699d7b8b3
better example of grouping variable in ggplot_rsi
2018-08-14 12:07:03 +02:00
dr. M.S. (Matthijs) Berends
b0995362af
testthat error
2018-08-14 12:00:01 +02:00
dr. M.S. (Matthijs) Berends
533342583a
Travis checks
2018-08-14 11:37:40 +02:00
dr. M.S. (Matthijs) Berends
324d8b955e
AppVeyor update
2018-08-14 11:25:36 +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
dr. M.S. (Matthijs) Berends
59ce1eb1b1
ggplot_rsi improvements
2018-08-13 16:42:37 +02:00
dr. M.S. (Matthijs) Berends
dba06c3295
abname improvement, small fixes
2018-08-13 11:00:53 +02:00
dr. M.S. (Matthijs) Berends
ce2cdb9309
support groups for portion_df, update README
2018-08-12 22:34:03 +02:00
dr. M.S. (Matthijs) Berends
e5d32cafe0
new unit tests for ggplot, small fixes
2018-08-12 17:44:06 +02:00
dr. M.S. (Matthijs) Berends
1ba7d883fe
new ggplot enhancement
2018-08-11 21:30:00 +02:00
dr. M.S. (Matthijs) Berends
4680df1e9c
travis: no devel for osx
2018-08-10 15:06:09 +02:00
dr. M.S. (Matthijs) Berends
53fa198e35
new portion functions
2018-08-10 15:01:05 +02:00
dr. M.S. (Matthijs) Berends
ae2433a020
rsi family for resistance analysis
2018-08-03 14:49:29 +02:00
dr. M.S. (Matthijs) Berends
227121af3d
add Dialister to microorganisms
2018-08-03 11:46:06 +02:00
dr. M.S. (Matthijs) Berends
db5a0d32a5
typos of Becker algorithm
2018-08-03 10:58:48 +02:00
dr. M.S. (Matthijs) Berends
bd9bcfef78
thesis advisors
2018-08-03 09:59:39 +02:00
dr. M.S. (Matthijs) Berends
6262315527
Becker classification
...
Lancefield classification
Added Lancefield groups to `microorganisms` data set
2018-08-02 13:15:45 +02:00
dr. M.S. (Matthijs) Berends
edd2dd09dc
rsi for freq
2018-08-01 22:37:28 +02:00
dr. M.S. (Matthijs) Berends
d8f70a74de
clipboard error
2018-08-01 10:32:24 +02:00
