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
693f64bdbf
new EUCAST rules: clinical breakpoints
2018-10-17 17:32:34 +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
a6aa9e95fb
completed old taxonomic names
2018-09-28 20:13:13 +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
9c566585b0
first inclusion of ITIS data
2018-09-24 23:33:29 +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
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
b83e6a9380
algoritm improvement, removed all Catabacter except for C. hongkongensis
2018-09-10 11:40:54 +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
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
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
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
ce2cdb9309
support groups for portion_df, update README
2018-08-12 22:34:03 +02:00
dr. M.S. (Matthijs) Berends
53fa198e35
new portion functions
2018-08-10 15:01:05 +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
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
d9e204031d
update to septic_patients, speed improvements
2018-07-25 14:17:04 +02:00
dcc26dd942
Update freq function
2018-05-22 16:34:22 +02:00
dr. M.S. (Matthijs) Berends
6eaf594cb7
update data info
2018-05-01 09:57:50 +02:00
dr. M.S. (Matthijs) Berends
970e3ed7f1
EUCAST rules for MDRO
2018-04-25 15:33:58 +02:00
dr. M.S. (Matthijs) Berends
c182a9673d
fix clipboard on linux
2018-04-02 11:11:21 +02:00
dr. M.S. (Matthijs) Berends
53464ff1c8
- For functions `first_isolate`, `EUCAST_rules` the antibiotic column names are case-insensitive
...
- Functions `first_isolate`, `EUCAST_rules` and `rsi_predict` supports tidyverse-like evaluation of parameters (no need to quote columns them anymore)
- Functions `clipboard_import` and `clipboard_export` as helper functions to quickly copy and paste from/to software like Excel and SPSS
- Renamed dataset `bactlist` to `microorganisms`
2018-03-23 14:46:02 +01:00
dr. M.S. (Matthijs) Berends
fe803f7279
use guess_bactid for GLIMS codes
2018-03-19 21:23:21 +01:00
dr. M.S. (Matthijs) Berends
502a44eb25
- Added new function `guess_bactid` to determine the ID of a microorganism based on genus/species
...
- Renamed `ablist` to `antibiotics`
- Added support for character vector in join functions
- Altered `%like%` to make it case insensitive
2018-03-19 12:43:22 +01:00
ceefluz
4ea0333349
Minor text changes for DDD definition
2018-03-13 11:48:30 +01:00
dr. M.S. (Matthijs) Berends
34e70a65ed
added septic_patients
2018-02-27 20:01:02 +01:00
dr. M.S. (Matthijs) Berends
8a603876d2
misc
2018-02-26 15:53:09 +01:00
dr. M.S. (Matthijs) Berends
be51a95448
rename columns
2018-02-26 10:53:54 +01:00
dr. M.S. (Matthijs) Berends
62304dc23f
first commit
2018-02-21 11:52:31 +01:00
uscloud
