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autoplot method for mic_solve objects

autoplot.mic_solve.Rd

Quick ggplot2 visualisations of the main outputs from mic_solve(). Three panels are supported:

  • "mic" - forest plot of group-wise MIC estimates with asymmetric CIs.

  • "delta" - forest plot of deltaMIC pairwise differences.

  • "ratio" - forest plot of MIC ratios (log scale).

Usage

# S3 method for class 'mic_solve'
autoplot(
  object,
  type = c("mic", "delta", "ratio", "DoD_delta", "DoD_ratio"),
  x = NULL,
  color_by = NULL,
  dot_size = 0.5,
  ...
)

Arguments

object

An object returned by mic_solve().

type

One of "mic", "delta", or "ratio", "DoD_delta", or "DoD_ratio".

x

Variable for x axis plotting

color_by

Optional column name used to color and dodge replicate points. Default: first column in newdata.

dot_size

Size of the dots in the dotplot. Default: 0.5.

...

Additional arguments passed to ggplot2::ggplot().

Value

A ggplot object.

Author

Carson Stacy

Examples

if (requireNamespace("ordinal", quietly = TRUE) &&
    requireNamespace("ggplot2", quietly = TRUE)) {
  df <- data.frame(score  = ordered(sample(0:4, 120, TRUE)),
                   conc   = runif(120, 0, 4),
                   strain = factor(sample(c("A","B"), 120, TRUE)))
  fit <- ordinal::clm(score ~ strain * log1p(conc), data = df)
  res <- mic_solve(fit, expand.grid(strain = levels(df$strain)),
                   conc_name = "conc")
  ggplot2::autoplot(res, type = "mic")
}
#> Warning: NaNs produced
#> Warning: NaNs produced