Plot ion chromatogram — plotChromatogram • profilePro

Plot ion chromatogram from MetaboProfile.

Usage

plotChromatogram(
  processed_data,
  cls = NULL,
  group = FALSE,
  alpha = 1,
  aggregationFun = "max",
  ...
)

# S4 method for MetaboProfile
plotChromatogram(
  processed_data,
  cls = NULL,
  group = FALSE,
  alpha = 1,
  aggregationFun = "max",
  ...
)

Arguments

processed_data: S4 object of class MetaboProfile
cls: sample information column to use for plot colours.
group: average samples within groups. If cls is NULL, plot average chromatogram across all samples.
alpha: plot line transparancy alpha
aggregationFun: value to pass to xcms::chromatogram() for chromatogram type. Defaults to base peak ("max").
...: arguments to pass to erah::plotChr()