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baseline

Baseline Correction of Spectra

Collection of baseline correction algorithms, along with a framework and a Tcl/Tk enabled GUI for optimising baseline algorithm parameters. Typical use of the package is for removing background effects from spectra originating from various types of spectroscopy and spectrometry, possibly optimizing this with regard to regression or classification results. Correction methods include polynomial fitting, weighted local smoothers and many more.

Functions (42)

PLSRTest-class

Class "PLSRTest"

XPS core line data

Extraction methods for "baselineAlgTest" objects

Baseline correction

baseline-class

Class "baseline"

baseline-package

Baseline correction

baseline.TAP

TAP

baseline.als

Asymmetric Least Squares

baseline.fillPeaks

Fill peaks

baseline.irls

Iterative Restricted Least Squares

baseline.lowpass

Low-pass FFT filter

baseline.medianWindow

Median window

baseline.modpolyfit

Modified polynomial fitting

baseline.peakDetection

Simultaneous Peak Detection and Baseline Correction

baseline.rfbaseline

Robust Baseline Estimation

baseline.rollingBall

Rolling ball

baseline.shirley

Shirley Background Estimation

baselineAlg-class

Class "baselineAlg"

baselineAlgResult-class

Class "baselineAlgResult"

baselineAlgTest-class

Class "baselineAlgTest"

baselineAlgorithms

List of available baseline algorithms

baselineAlgorithmsGUI

List of available baseline algorithms for GUI function

baselineEnv

Baseline environment

baselineGUI

Interactive plotting tool

custom.baseline

Customized baseline correction

Optimise several baseline algorithms on a data set

Extract the "funcName" slot.

getBaseline

Functions to extract the components of a "baseline" object

Extraction methods specific for "predictionResult" objects

milk

MALDI-TOF mass spectra

name

Extraction methods for "baselineAlg" objects

optimWizard

Visual tool for setting up optimization

overall.min

Extract the minimum from a baseline optimisation

Extract the "param" slot

param.ind.min

Extraction methods for "baselineAlgResult" objects

plotBaseline

Plot method for "baseline" objects

Plotting tool for result objects from optimization

predictionResult-class

Class "predictionResult"

predictionTest-class

Class "predictionTest"

Extraction functions for "predictionResult" or "baselineAlgResult" objects

ridgeRegressionTest-class

Class "ridgeRegressionTest"

Run a predictionTest or baselineAlgTest

baseline

Baseline Correction of Spectra

v1.3-1

GPL-2

Authors

Kristian Hovde Liland [aut, cre], Bjørn-Helge Mevik [aut], Roberto Canteri [ctb]

Initial release

2020-09-10

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