mirror of
https://github.com/msberends/AMR.git
synced 2024-12-26 20:06:11 +01:00
95 lines
3.2 KiB
R
95 lines
3.2 KiB
R
# ==================================================================== #
|
|
# TITLE: #
|
|
# AMR: An R Package for Working with Antimicrobial Resistance Data #
|
|
# #
|
|
# SOURCE CODE: #
|
|
# https://github.com/msberends/AMR #
|
|
# #
|
|
# PLEASE CITE THIS SOFTWARE AS: #
|
|
# Berends MS, Luz CF, Friedrich AW, et al. (2022). #
|
|
# AMR: An R Package for Working with Antimicrobial Resistance Data. #
|
|
# Journal of Statistical Software, 104(3), 1-31. #
|
|
# https://doi.org/10.18637/jss.v104.i03 #
|
|
# #
|
|
# Developed at the University of Groningen and the University Medical #
|
|
# Center Groningen in The Netherlands, in collaboration with many #
|
|
# colleagues from around the world, see our website. #
|
|
# #
|
|
# 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. #
|
|
# We created this package for both routine data analysis and academic #
|
|
# research and it was publicly released in the hope that it will be #
|
|
# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY. #
|
|
# #
|
|
# Visit our website for the full manual and a complete tutorial about #
|
|
# how to conduct AMR data analysis: https://msberends.github.io/AMR/ #
|
|
# ==================================================================== #
|
|
|
|
expect_equal(
|
|
age(
|
|
x = c("1980-01-01", "1985-01-01", "1990-01-01"),
|
|
reference = "2019-01-01"
|
|
),
|
|
c(39, 34, 29)
|
|
)
|
|
|
|
expect_equal(age(
|
|
x = c("2019-01-01", "2019-04-01", "2019-07-01"),
|
|
reference = "2019-09-01",
|
|
exact = TRUE
|
|
),
|
|
c(0.6656393, 0.4191781, 0.1698630),
|
|
tolerance = 0.001
|
|
)
|
|
|
|
expect_error(age(
|
|
x = c("1980-01-01", "1985-01-01", "1990-01-01"),
|
|
reference = c("2019-01-01", "2019-01-01")
|
|
))
|
|
|
|
# expect_warning(age(x = c("1980-01-01", "1985-01-01", "1990-01-01"), reference = "1975-01-01"))
|
|
# expect_warning(age(x = c("1800-01-01", "1805-01-01", "1810-01-01"), reference = "2019-01-01"))
|
|
|
|
expect_equal(
|
|
length(age(x = c("2019-01-01", NA), na.rm = TRUE)),
|
|
1
|
|
)
|
|
|
|
|
|
ages <- c(3, 8, 16, 54, 31, 76, 101, 43, 21)
|
|
|
|
expect_equal(
|
|
length(unique(age_groups(ages, 50))),
|
|
2
|
|
)
|
|
expect_equal(
|
|
length(unique(age_groups(ages, c(50, 60)))),
|
|
3
|
|
)
|
|
expect_identical(
|
|
class(age_groups(ages, "child")),
|
|
c("ordered", "factor")
|
|
)
|
|
|
|
expect_identical(
|
|
class(age_groups(ages, "elderly")),
|
|
c("ordered", "factor")
|
|
)
|
|
|
|
expect_identical(
|
|
class(age_groups(ages, "tens")),
|
|
c("ordered", "factor")
|
|
)
|
|
|
|
expect_identical(
|
|
class(age_groups(ages, "fives")),
|
|
c("ordered", "factor")
|
|
)
|
|
|
|
expect_equal(
|
|
length(age_groups(c(10, 20, 30, NA), na.rm = TRUE)),
|
|
3
|
|
)
|