AMR/R/globals.R

101 lines
3.8 KiB
R
Raw Normal View History

2018-02-21 11:52:31 +01:00
# ==================================================================== #
# TITLE #
# Antimicrobial Resistance (AMR) Analysis #
# #
2019-01-02 23:24:07 +01:00
# SOURCE #
# https://gitlab.com/msberends/AMR #
2018-02-21 11:52:31 +01:00
# #
# LICENCE #
2019-01-02 23:24:07 +01:00
# (c) 2019 Berends MS (m.s.berends@umcg.nl), Luz CF (c.f.luz@umcg.nl) #
2018-02-21 11:52:31 +01:00
# #
2019-01-02 23:24:07 +01:00
# This R package is free software; you can freely use and distribute #
# it for both personal and commercial purposes under the terms of the #
# GNU General Public License version 2.0 (GNU GPL-2), as published by #
# the Free Software Foundation. #
# #
# This R package was created for academic research and was publicly #
# released in the hope that it will be useful, but it comes WITHOUT #
# ANY WARRANTY OR LIABILITY. #
2019-04-05 18:47:39 +02:00
# Visit our website for more info: https://msberends.gitlab.io/AMR. #
2018-02-21 11:52:31 +01:00
# ==================================================================== #
2018-09-01 21:19:46 +02:00
globalVariables(c(".",
2018-09-24 23:33:29 +02:00
"..property",
2019-05-10 16:44:59 +02:00
"ab",
"abbreviations",
2018-09-01 21:19:46 +02:00
"antibiotic",
2019-04-05 18:47:39 +02:00
"CNS_CPS",
2019-02-20 00:04:48 +01:00
"col_id",
2018-09-01 21:19:46 +02:00
"count",
2018-10-01 11:39:43 +02:00
"count.x",
2018-09-01 21:19:46 +02:00
"date_lab",
2018-10-01 14:44:40 +02:00
"diff.percent",
"First name",
2018-09-01 21:19:46 +02:00
"first_isolate_row_index",
2018-09-24 23:33:29 +02:00
"fullname",
2019-02-27 17:39:39 +01:00
"fullname_lower",
2018-09-01 21:19:46 +02:00
"genus",
"gramstain",
2019-08-12 15:34:49 +02:00
"group",
2018-11-16 22:28:55 +01:00
"index",
2019-02-27 19:02:47 +01:00
"input",
2019-06-13 16:40:35 +02:00
"interpretation",
2019-06-27 11:57:45 +02:00
"isolates",
2018-09-01 21:19:46 +02:00
"item",
"key_ab",
"key_ab_lag",
"key_ab_other",
2019-02-20 00:04:48 +01:00
"kingdom",
2019-09-22 12:41:45 +02:00
"kingdom_index",
2019-05-10 16:44:59 +02:00
"lang",
"Last name",
2019-05-10 16:44:59 +02:00
"lookup",
2019-06-27 11:57:45 +02:00
"mdr",
2018-09-01 21:19:46 +02:00
"median",
"microorganisms",
2019-09-23 20:55:54 +02:00
"microorganisms.codes",
2019-06-27 11:57:45 +02:00
"missing_names",
2018-09-01 21:19:46 +02:00
"mo",
2019-06-27 11:57:45 +02:00
"mono_count",
2019-01-02 23:24:07 +01:00
"more_than_episode_ago",
2019-06-27 11:57:45 +02:00
"name",
2019-03-28 22:05:03 +01:00
"new",
"newvar_date",
"newvar_genus_species",
"newvar_mo",
"newvar_patient_id",
"newvar_row_index",
"newvar_row_index_sorted",
2018-09-01 21:19:46 +02:00
"observations",
2019-01-17 12:08:04 +01:00
"observed",
2019-03-28 22:05:03 +01:00
"old",
2019-09-18 15:46:09 +02:00
"old_name",
2018-09-01 21:19:46 +02:00
"other_pat_or_mo",
2019-09-16 12:00:56 +02:00
"package_version",
2018-09-01 21:19:46 +02:00
"patient_id",
2019-06-12 16:08:20 +02:00
"pattern",
2019-04-05 18:47:39 +02:00
"plural",
"prevalence",
2018-09-01 21:19:46 +02:00
"R",
"real_first_isolate",
2019-01-17 12:08:04 +01:00
"ref",
2019-04-05 18:47:39 +02:00
"rule_group",
"rule_name",
2018-09-01 21:19:46 +02:00
"S",
2019-01-17 12:08:04 +01:00
"se_max",
"se_min",
2019-06-27 11:57:45 +02:00
"second",
2019-01-29 20:38:45 +01:00
"Sex",
2018-09-01 21:19:46 +02:00
"species",
2019-03-26 14:24:03 +01:00
"species_id",
2019-03-26 14:42:56 +01:00
"subspecies",
2019-05-10 16:44:59 +02:00
"synonyms",
2019-08-25 23:25:12 +02:00
"total",
2019-04-05 18:47:39 +02:00
"txt",
2019-09-16 12:00:56 +02:00
"uncertainty_level",
2018-09-01 21:19:46 +02:00
"value",
2019-09-16 12:00:56 +02:00
"x",
2019-06-27 11:57:45 +02:00
"xdr",
2018-09-24 23:33:29 +02:00
"y",
"year"))