PlotSpectraPCA: PlotSpectraPCA

In xia-lab/OptiLCMS: Optimized LC-MS Spectra Processing

PlotSpectraPCA

Description

This function is used to plot the PCA of all spectra

Usage

PlotSpectraPCA(mSet = NULL, imgName, format = "png", dpi = 72, width = NA)

Arguments

mSet	mSet object, usually generated after the peakannotaion finished here.
imgName	Character, to give the name of BPI figures ploted.
format	Character, to give the format of BPI figures ploted. Can be "jpeg", "png", "pdf", "svg", "tiff" or "ps". Default is "png".
dpi	Numeric, to define the dpi of the figures. Default is 72.
width	Numeric, to define the width of the figure. Height = width * 0.618.

Value

will return a figure of PCA after log tranformation (log2)

Examples

data(mSet);
newPath <- dir(system.file("mzData", package = "mtbls2"),
               full.names = TRUE, recursive = TRUE)[c(10, 11, 12)]
mSet <- updateRawSpectraPath(mSet, newPath);
PlotSpectraPCA(mSet);

xia-lab/OptiLCMS documentation built on Nov. 26, 2024, 3:50 a.m.