PlotChromPeak: Plot the chromatographic peaks of class peakObj

In shadieshghi/TargetedMSQC: TargetedMSQC for Automated Quality Assessment of Targeted Mass Spectrometry Data

Description

The function takes a peak group of class peakObj as input and plots its chromatogram. It can generate a static (ggplot) or interactive (plotly) plot.

Usage

PlotChromPeak(peak, plottype = c("ggplot", "plotly"), split.label = TRUE,
  endogenous.label = "light", standard.label = "heavy",
  transition.list = NULL, label.list = NULL, font.size = 20, ...)

Arguments

peak	A peak group of class peakObj
plottype	This parameter can take values of "ggplot" for static and "plotly" for interactive plots
split.label	A logical parameter. If split.label = TRUE, the peaks corresponding to different isotope label types will be split into two panels
endogenous.label	Label of the endogenous analyte: default is "light"
standard.label	Label of the spiked-in isotopically labeled analyte: default is "heavy"
transition.list	List of transitions to be plotted. If transition.list = NULL, all transitions will be plotted. Example: transition.list = c("b3","y4")
label.list	List of isotope label types to be plotted. If label.list = NULL, all isotope label types will be plotted. Example: label.list = c("light")
font.size	Font size of text in the plot

Value

A plot object of class ggplot or plotly

Examples

peak <- data.CSF$data$PeakGroup[[1]]
PlotChromPeak(peak,transition.list = c("b5","y6"), label.list = NULL,split.label = FALSE)
PlotChromPeak(peak,split.label = TRUE)

shadieshghi/TargetedMSQC documentation built on May 13, 2019, 12:20 p.m.