2019-01-11 20:37:23 +01:00
|
|
|
# ==================================================================== #
|
|
|
|
|
# TITLE #
|
|
|
|
|
# Antimicrobial Resistance (AMR) Analysis #
|
|
|
|
|
# #
|
|
|
|
|
# SOURCE #
|
|
|
|
|
# https://gitlab.com/msberends/AMR #
|
|
|
|
|
# #
|
|
|
|
|
# LICENCE #
|
|
|
|
|
# (c) 2019 Berends MS (m.s.berends@umcg.nl), Luz CF (c.f.luz@umcg.nl) #
|
|
|
|
|
# #
|
|
|
|
|
# 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. #
|
|
|
|
|
# Visit our website for more info: https://msberends.gitab.io/AMR. #
|
|
|
|
|
# ==================================================================== #
|
|
|
|
|
|
|
|
|
|
context("guess_ab_col.R")
|
|
|
|
|
|
|
|
|
|
test_that("guess_ab_col works", {
|
|
|
|
|
|
|
|
|
|
expect_equal(guess_ab_col(septic_patients, "amox"),
|
|
|
|
|
"amox")
|
|
|
|
|
expect_equal(guess_ab_col(septic_patients, "amoxicillin"),
|
|
|
|
|
"amox")
|
|
|
|
|
expect_equal(guess_ab_col(septic_patients, "J01AA07"),
|
|
|
|
|
"tetr")
|
|
|
|
|
expect_equal(guess_ab_col(septic_patients, "tetracycline"),
|
|
|
|
|
"tetr")
|
|
|
|
|
expect_equal(guess_ab_col(septic_patients, "TETR"),
|
|
|
|
|
"tetr")
|
2019-01-29 00:06:50 +01:00
|
|
|
|
|
|
|
|
df <- data.frame(AMP_ND10 = "R",
|
|
|
|
|
AMC_ED20 = "S")
|
|
|
|
|
expect_equal(guess_ab_col(df, "ampicillin"),
|
|
|
|
|
"AMP_ND10")
|
|
|
|
|
expect_equal(guess_ab_col(df, "J01CR02"),
|
|
|
|
|
"AMC_ED20")
|
|
|
|
|
expect_equal(guess_ab_col(df, as.atc("augmentin")),
|
|
|
|
|
"AMC_ED20")
|
2019-01-11 20:37:23 +01:00
|
|
|
})
|
