MALDIquant (version 1.2)

.estimateBaselineMedian: Estimates the baseline by moving estimators.

Description

This function estimates the baseline of mass spectrometry data. The baseline estimation is based on median which is used in a moving window. It is hidden by NAMESPACE because it is a private function and estimateBaseline,MassSpectrum-method should be used instead.

Usage

.estimateBaselineMedian(x, y,
    halfWindowSize=100)

Arguments

x

vector of x values

y

vector of y values

halfWindowSize

half size of the moving window for the median (based on runmed) The resulting window reaches from mass[cur_index-halfWindowSize] to mass[cur_index+halfWindowSize].

Value

• Returns a two column matrix (first column: mass, second column: intensity) of the estimated baseline.

See Also

MassSpectrum, estimateBaseline,MassSpectrum-method, removeBaseline,MassSpectrum-method

Examples

## load library
library("MALDIquant");

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

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

## plot spectrum
plot(s);

## estimate baseline
b <- estimateBaseline(s, method="Median");

## draw baseline on the plot
lines(b, col="red");