Make a SuperPlot — superplot • SuperPlotR

Make a SuperPlot

Usage

superplot(
  df,
  meas,
  cond,
  repl,
  pal = "tol_bright",
  xlab = "",
  ylab = "Measurement",
  datadist = "sina",
  size = c(2, 3),
  alpha = c(0.5, 0.7),
  bars = "",
  linking = FALSE,
  rep_summary = "rep_mean",
  shapes = FALSE,
  fsize = 12,
  gg = NULL,
  stats = FALSE,
  stats_test = "para_unpaired"
)

Arguments

df: data frame with at least three columns: meas, cond, repl
meas: character name of column with measurement (e.g. intensity)
cond: character name of column with condition (e.g. Control, WT)
repl: character name of column with replicate (e.g. unique experiment identifiers)
pal: name of colour palette to use (default is "tol_bright")
xlab: string for x label (default is empty)
ylab: string for y label (default is "Measurement")
datadist: string for data distribution to use, select ("sina" default, "jitter", or "violin")
size: numeric vector of size range data and summary points (default is c(2, 3))
alpha: numeric vector of alpha range data and summary points (default is c(0.5, 0.7))
bars: string for type of error bars to add, select ("none" default, "mean_sd", "mean_sem", or "mean_ci")
linking: logical for whether to link summary points between conditions (default is FALSE)
rep_summary: string for summary statistic to use for replicates, select ("rep_mean" default, or "rep_median")
shapes: logical for whether to use different shapes for replicates
fsize: numeric font size for text (default is 12)
gg: ggplot object to add to (default is NULL)
stats: logical for whether to add statistical tests (default is FALSE)
stats_test: string for statistical test to use, select ("para_unpaired", "para_paired", "nonpara_unpaired", or "nonpara_paired")

Value

ggplot object

Examples

superplot(lord_jcb,
  "Speed", "Treatment", "Replicate",
  ylab = "Speed (um/min)")