mirror of
https://github.com/msberends/AMR.git
synced 2024-12-26 18:06:11 +01:00
62 lines
3.2 KiB
R
Executable File
62 lines
3.2 KiB
R
Executable File
# ==================================================================== #
|
|
# 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/ #
|
|
# ==================================================================== #
|
|
|
|
unjoined <- example_isolates
|
|
inner <- inner_join_microorganisms(example_isolates)
|
|
left <- left_join_microorganisms(example_isolates)
|
|
semi <- semi_join_microorganisms(example_isolates)
|
|
anti <- anti_join_microorganisms(example_isolates)
|
|
suppressWarnings(right <- right_join_microorganisms(example_isolates))
|
|
suppressWarnings(full <- full_join_microorganisms(example_isolates))
|
|
|
|
expect_true(ncol(unjoined) < ncol(inner))
|
|
expect_true(nrow(unjoined) == nrow(inner))
|
|
|
|
expect_true(ncol(unjoined) < ncol(left))
|
|
expect_true(nrow(unjoined) == nrow(left))
|
|
|
|
expect_true(ncol(semi) == ncol(semi))
|
|
expect_true(nrow(semi) == nrow(semi))
|
|
|
|
expect_true(nrow(anti) == 0)
|
|
|
|
expect_true(nrow(unjoined) < nrow(right))
|
|
expect_true(nrow(unjoined) < nrow(full))
|
|
|
|
expect_equal(nrow(inner_join_microorganisms("B_ESCHR_COLI")), 1)
|
|
expect_equal(nrow(inner_join_microorganisms("B_ESCHR_COLI", by = c("mo" = "mo"))), 1)
|
|
|
|
expect_equal(nrow(left_join_microorganisms("B_ESCHR_COLI")), 1)
|
|
|
|
expect_equal(nrow(semi_join_microorganisms("B_ESCHR_COLI")), 1)
|
|
expect_equal(nrow(anti_join_microorganisms("B_ESCHR_COLI")), 0)
|
|
|
|
# expect_warning(right_join_microorganisms("B_ESCHR_COLI"))
|
|
# expect_warning(full_join_microorganisms("B_ESCHR_COLI"))
|