MIC (version 1.0.2)

plot.mic_validation: Plot MIC validation results

Description

Plot MIC validation results

Usage

# S3 method for mic_validation
plot(
  x,
  match_axes = TRUE,
  add_missing_dilutions = TRUE,
  facet_wrap_ncol = NULL,
  facet_wrap_nrow = NULL,
  ...
)

Value

ggplot object

Arguments

x

object generated using compare_mic

match_axes

Same x and y axis

add_missing_dilutions

Axes will include dilutions that are not

facet_wrap_ncol

Facet wrap into n columns by antimicrobial (optional, only available when more than one antimicrobial in validation)

facet_wrap_nrow

Facet wrap into n rows by antimicrobial (optional, only available when more than one antimicrobial in validation) represented in the data, based on a series of dilutions generated using mic_range().

...

additional arguments

Examples

gold_standard <- c("<0.25", "8", "64", ">64")
test <- c("<0.25", "2", "16", "64")
val <- compare_mic(gold_standard, test)
plot(val)

# works with validation that includes categorical agreement
# categorical agreement is ignored
ab <- c("AMK", "AMK", "AMK", "AMK")
mo <- c("B_ESCHR_COLI", "B_ESCHR_COLI", "B_ESCHR_COLI", "B_ESCHR_COLI")
val <- compare_mic(gold_standard, test, ab, mo)
plot(val)

# if the validation contains multiple antibiotics, i.e.,
ab <- c("CIP", "CIP", "AMK", "AMK")
val <- compare_mic(gold_standard, test, ab, mo)
# the following will plot all antibiotics in a single plot (pooled results)
plot(val)
# use the faceting arguments to split the plot by antibiotic
plot(val, facet_wrap_ncol = 2)