baseline {baseline}R Documentation

Baseline correction

Description

Common framework for baseline correction

Usage

baseline(spectra, method = "irls", ...)

Arguments

spectra

Matrix with spectra in rows

method

Baseline correction method

...

Additional parameters, sent to the method

Details

Estimates baselines for the spectra, using the algorithm named in method.

Value

An object of class baseline.

Author(s)

Kristian Hovde Liland and Bjørn-Helge Mevik

References

Kristian Hovde Liland, Trygve Almøy, Bjørn-Helge Mevik (2010), Optimal Choice of Baseline Correction for Multivariate Calibration of Spectra, Applied Spectroscopy 64, pp. 1007-1016.

See Also

The functions implementing the baseline algorithms: baseline.als, baseline.fillPeaks, baseline.irls, baseline.lowpass, baseline.medianWindow, baseline.modpolyfit, baseline.peakDetection, baseline.rfbaseline, baseline.rollingBall, baseline.shirley, baseline.TAP

Examples

# Load data
data(milk)
# The baseline() function is an S4 wrapper for all the different 
# baseline correction methods. The default correction method
# is IRLS. Data must be organized as row vectors in a matrix
# or data.frame.
bc.irls <- baseline(milk$spectra[1,, drop=FALSE])
## Not run: 
  # Computationally heavy
	plot(bc.irls)

## End(Not run)

# Available extractors are:
# getBaseline(bc.irls)
# getSpectra(bc.irls)
# getCorrected(bc.irls)
# getCall(bc.irls)

# Correction methods and parameters can be specified through the wrapper.
bc.fillPeaks <- baseline(milk$spectra[1,, drop=FALSE], lambda=6,
	hwi=50, it=10, int=2000, method='fillPeaks')
## Not run: 
  # Computationally heavy
	plot(bc.fillPeaks)

## End(Not run)

# If a suitable gWidgets2 implementation is installed, a 
# graphical user interface is available for interactive
# parameter adaption.
## Not run: 
  # Dependent on external software
  baselineGUI(milk$spectra)

## End(Not run)

[Package baseline version 1.3-1 Index]