PlotXIC: PlotXIC/EIC

View source: R/Spectra_visulization.R

PlotXICR Documentation

PlotXIC/EIC

Description

This functionn creates an extracted ion chromatogram (XIC/EIC) for a specific m/z and retention time. This is used for quality-control of raw m/s data.

Usage

PlotXIC(
  mSet = NULL,
  featureNum,
  sample_labeled,
  Group_labeled,
  format,
  dpi,
  width,
  height,
  sample_filled,
  group_filled
)

Arguments

mSet

mSet Object. Should contain the spectra processing result.

featureNum

Numeric, Feature number in the feature table.

sample_labeled

Logical, whether to lable the sample name.

Group_labeled

Logical, whether to lable the group name.

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

Numeric, to define the height of the figure.

sample_filled

Logical, to determine the EIC/XIC is filled or not for sample EIC

group_filled

Logical, to determine the EIC/XIC is filled or not for group EIC

Value

will return a figure of EIC/XIC

Examples

data(mSet);
newPath <- dir(system.file("mzData", package = "mtbls2"),
               full.names = TRUE, recursive = TRUE)[c(10, 11, 12)]
mSet <- updateRawSpectraPath(mSet, newPath);
#PlotXIC(mSet, 1, TRUE, TRUE);

xia-lab/OptiLCMS documentation built on March 27, 2024, 11:11 a.m.