MALDIquant (version 1.18)

transformIntensity-methods: Transforms intensities of an AbstractMassObject object.

Description

This method performs a transformation (e.g. sqrt-transformation) on the intensities of an '>AbstractMassObject object.

Usage

# S4 method for AbstractMassObject
transformIntensity(object,
  method=c("sqrt", "log", "log2", "log10"))
# S4 method for list
transformIntensity(object, …)

Arguments

object

'>AbstractMassObject object or a list of '>AbstractMassObject objects.

method

used transformation method.

…

arguments to be passed to underlying functions. If object is a list mc.cores is also supported.

See Also

'>AbstractMassObject, '>MassSpectrum

Website: http://strimmerlab.org/software/maldiquant/

Examples

# NOT RUN {
## load package
library("MALDIquant")

## load example data
data("fiedler2009subset", package="MALDIquant")

## choose only the first mass spectrum
s <- fiedler2009subset[[1]]

## transform spectrum
t <- transformIntensity(s, method="sqrt")

## plot spectrum
par(mfrow=c(2, 1))
plot(s, main="raw spectrum")
plot(t, main="transformed spectrum")
par(mfrow=c(1, 1))
# }