mirror of https://github.com/msberends/AMR.git
53 lines
2.7 KiB
R
Executable File
53 lines
2.7 KiB
R
Executable File
# ==================================================================== #
|
|
# TITLE #
|
|
# AMR: An R Package for Working with Antimicrobial Resistance Data #
|
|
# #
|
|
# SOURCE #
|
|
# https://github.com/msberends/AMR #
|
|
# #
|
|
# CITE AS #
|
|
# Berends MS, Luz CF, Friedrich AW, Sinha BNM, Albers CJ, Glasner C #
|
|
# (2022). AMR: An R Package for Working with Antimicrobial Resistance #
|
|
# Data. Journal of Statistical Software, 104(3), 1-31. #
|
|
# doi: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/ #
|
|
# ==================================================================== #
|
|
|
|
#' @rdname proportion
|
|
#' @export
|
|
sir_df <- function(data,
|
|
translate_ab = "name",
|
|
language = get_AMR_locale(),
|
|
minimum = 30,
|
|
as_percent = FALSE,
|
|
combine_SI = TRUE,
|
|
confidence_level = 0.95) {
|
|
tryCatch(
|
|
sir_calc_df(
|
|
type = "both",
|
|
data = data,
|
|
translate_ab = translate_ab,
|
|
language = language,
|
|
minimum = minimum,
|
|
as_percent = as_percent,
|
|
combine_SI = combine_SI,
|
|
confidence_level = confidence_level
|
|
),
|
|
error = function(e) stop_(gsub("in sir_calc_df(): ", "", e$message, fixed = TRUE), call = -5)
|
|
)
|
|
}
|