plot_peaks: Plot the peaks of a MS or NMR dataset.

In specmine: Metabolomics and Spectral Data Analysis and Mining

Description

Function returns a plot where each point represents the intensity of a peak in a sample. Peaks are coloured according to a metadata class.

Usage

plot_peaks(dataset, column.class, samples = NULL, variable.bounds = NULL,
xlab = NULL, ylab = NULL, legend.place = "topright", cex = 0.8,
reverse.x = FALSE, p.size=0.5, ...)

Arguments

dataset	list representing the dataset from a metabolomics experiment.
column.class	string indicating the metadata's variable.
samples	vector with samples' names, if NULL all the samples will be considered.
variable.bounds	numeric vector with two elements indicating the interval of x-values to plot.
xlab	x-axis label.
ylab	y-axis label.
legend.place	string indicating the place that the legend's box will be placed.
cex	numeric value that indicates the amount by which the legend is magnified relative to the default.
reverse.x	boolean value indicating if the x-axis will be shown reversed or not.
p.size	numeric value indicating the amount by which the plot points are magnified relative to the default.
...	additional parameters to matplot.

Examples

  library(specmine.datasets)
  data(propolis)
  plot_peaks(propolis, "seasons", variable.bounds = c(0,3), samples=c("XX_au", "XX_sm", "XX_wi"))

specmine documentation built on Sept. 21, 2021, 5:06 p.m.