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(v3.0.1.9119) update doc

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dr. M.S. (Matthijs) Berends committed 2026-10-11 23:03:06 +02:00
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DESCRIPTION
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Package: AMR
Version: 3.0.1.9118
Version: 3.0.1.9119
Date: 2026-10-11
Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR)
NEWS.md
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# AMR 3.0.1.9118
# AMR 3.0.1.9119
Planned as v3.1.0, mid October 2026.
R/sir_combine.R
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#' }
#' if (require("dplyr")) {
#' # use the new variable in further analyses
#' # THOUGH CONSIDER wisca() FOR RELIABLE ESTIMATES
#' example_isolates %>%
#' mutate(TZP_GEN = sir_combine(TZP, GEN)) %>%
#' group_by(ward) %>%
#' summarise(
#' TZP = susceptibility(TZP),
#' GEN = susceptibility(GEN),
#' TZP_mono = susceptibility(TZP),
#' GEN_mono = susceptibility(GEN),
#' TZP_GEN = susceptibility(TZP_GEN),
#' # or directly, without combining first:
#' TZP_GEN2 = susceptibility(TZP, GEN)
man/sir_combine.Rd
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}
if (require("dplyr")) {
# use the new variable in further analyses
# THOUGH CONSIDER wisca() FOR RELIABLE ESTIMATES
example_isolates \%>\%
mutate(TZP_GEN = sir_combine(TZP, GEN)) \%>\%
group_by(ward) \%>\%
summarise(
TZP = susceptibility(TZP),
GEN = susceptibility(GEN),
TZP_mono = susceptibility(TZP),
GEN_mono = susceptibility(GEN),
TZP_GEN = susceptibility(TZP_GEN),
# or directly, without combining first:
TZP_GEN2 = susceptibility(TZP, GEN)