plot-methods: Plots an AbstractMassObject object.
In MALDIquant: Quantitative Analysis of Mass Spectrometry Data

plot-methods

R Documentation

Plots an AbstractMassObject object.

Description

This is an overloaded method to allow plotting of an AbstractMassObject object.

Usage

## S4 method for signature 'AbstractMassObject,missing'
plot(x, col="black",
   xlab=expression(italic(m/z)), ylab="intensity",
   type=ifelse(isMassPeaks(x), "h", "l"),
   xlim=c(ifelse(length(x@mass), min(x@mass, na.rm=TRUE), 0),
      ifelse(length(x@mass), max(x@mass, na.rm=TRUE), 1)),
   ylim=c(0, ifelse(length(x@intensity), max(x@intensity, na.rm=TRUE), 1)),
   main=x@metaData$name, sub=x@metaData$file,
   cex.sub=0.75, col.sub="#808080", ...)

Arguments

`x`	`MassSpectrum` object.
`col`	line colour, see `par`.
`xlab`	title for the x-axis, see `title`.
`ylab`	title for the y-axis, see `title`.
`type`	type of plot: see `plot`.
`xlim`	the x limits (x1, x2) of the plot, see `plot.default`.
`ylim`	the y limits (y1, y2) of the plot, see `plot.default`.
`main`	title for the plot, see `title`.
`sub`	sub title for the plot, see `title`.
`cex.sub`	sub title font size, see `par`.
`col.sub`	sub title color, see `par`.
`...`	arguments to be passed to `plot`.

Author(s)

Sebastian Gibb mail@sebastiangibb.de

Examples

## load package
library("MALDIquant")

## create a MassSpectrum object by default constructor
s <- createMassSpectrum(mass=1:100, intensity=rnorm(100)^2,
                        metaData=list(name="example"))

## show some details
s

## plot spectrum
plot(s)

MALDIquant documentation built on Sept. 11, 2024, 6:15 p.m.