Baseline Correction of Spectra

---

Documentation for package ‘baseline’ version 1.3-7

• DESCRIPTION file.
• Package NEWS.

Help Pages

A B C D E F G I L M N O P Q R S T

baseline-package

Baseline correction

-- A --

algorithm	Extraction methods for "baselineAlgTest" objects
algorithm-method	Extraction methods for "baselineAlgTest" objects
algorithm-methods	Extraction methods for "baselineAlgTest" objects
als	Asymmetric Least Squares

-- B --

baseline	Baseline correction
baseline-class	Class "baseline"
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
baseline.TAP	TAP
baselineAlg-class	Class "baselineAlg"
baselineAlgorithms	List of available baseline algorithms
baselineAlgorithmsGUI	List of available baseline algorithms for GUI function
baselineAlgResult-class	Class "baselineAlgResult"
baselineAlgTest-class	Class "baselineAlgTest"
baselineEnv	Baseline environment
baselineGUI	Interactive plotting tool

-- C --

C1s	XPS core line data
custom.baseline	Customized baseline correction

-- D --

description	Extraction methods for "baselineAlg" objects
description-method	Extraction methods for "baselineAlg" objects
description-methods	Extraction methods for "baselineAlg" objects
doOptim	Optimise several baseline algorithms on a data set

-- E --

extraArgs	Extraction methods for "baselineAlgTest" objects
extraArgs-method	Extraction methods for "baselineAlgTest" objects
extraArgs-methods	Extraction methods for "baselineAlgTest" objects

-- F --

fillPeaks	Fill peaks
funcName	Extract the "funcName" slot.
funcName-method	Extract the "funcName" slot.
funcName-methods	Extract the "funcName" slot.

-- G --

getBaseline	Functions to extract the components of a "baseline" object
getBaseline-method	Class "baseline"
getBaselineEnv	Baseline environment
getCall	Functions to extract the components of a "baseline" object
getCall-method	Class "baseline"
getCorrected	Functions to extract the components of a "baseline" object
getCorrected-method	Class "baseline"
getOptim	Visual tool for setting up optimization
getOptimRes	Visual tool for setting up optimization
getSpectra	Functions to extract the components of a "baseline" object
getSpectra-method	Class "baseline"

-- I --

ind.min	Extraction methods specific for "predictionResult" objects
ind.min-method	Extraction methods specific for "predictionResult" objects
ind.min-methods	Extraction methods specific for "predictionResult" objects
irls	Iterative Restricted Least Squares

-- L --

lowpass

Low-pass FFT filter

-- M --

medianWindow	Median window
milk	MALDI-TOF mass spectra
minQualMeas	Extraction functions for "predictionResult" or "baselineAlgResult" objects
minQualMeas-method	Extraction functions for "predictionResult" or "baselineAlgResult" objects
minQualMeas-methods	Extraction functions for "predictionResult" or "baselineAlgResult" objects
modpolyfit	Modified polynomial fitting
mvrValstats	Optimise several baseline algorithms on a data set

-- N --

name	Extraction methods for "baselineAlg" objects
name-method	Extraction methods for "baselineAlg" objects
name-methods	Extraction methods for "baselineAlg" objects

-- O --

O1s	XPS core line data
optimWizard	Visual tool for setting up optimization
overall.min	Extract the minimum from a baseline optimisation

-- P --

param	Extract the "param" slot
param-method	Extract the "param" slot
param-methods	Extract the "param" slot
param.ind.min	Extraction methods for "baselineAlgResult" objects
param.ind.min-method	Extraction methods for "baselineAlgResult" objects
param.ind.min-methods	Extraction methods for "baselineAlgResult" objects
param.min	Extraction functions for "predictionResult" or "baselineAlgResult" objects
param.min-method	Extraction functions for "predictionResult" or "baselineAlgResult" objects
param.min-methods	Extraction functions for "predictionResult" or "baselineAlgResult" objects
paramName	Extraction methods specific for "predictionResult" objects
paramName-method	Extraction methods specific for "predictionResult" objects
paramName-methods	Extraction methods specific for "predictionResult" objects
peakDetection	Simultaneous Peak Detection and Baseline Correction
plot-method	Plot method for "baseline" objects
plotBaseline	Plot method for "baseline" objects
plotOptim	Plotting tool for result objects from optimization
PLSRTest-class	Class "PLSRTest"
predictionResult-class	Class "predictionResult"
predictionTest-class	Class "predictionTest"
putBaselineEnv	Baseline environment

-- Q --

qualMeas	Extraction functions for "predictionResult" or "baselineAlgResult" objects
qualMeas-method	Extraction functions for "predictionResult" or "baselineAlgResult" objects
qualMeas-methods	Extraction functions for "predictionResult" or "baselineAlgResult" objects
qualMeas.ind.min	Extraction methods for "baselineAlgResult" objects
qualMeas.ind.min-method	Extraction methods for "baselineAlgResult" objects
qualMeas.ind.min-methods	Extraction methods for "baselineAlgResult" objects
qualMeasName	Extraction functions for "predictionResult" or "baselineAlgResult" objects
qualMeasName-method	Extraction functions for "predictionResult" or "baselineAlgResult" objects
qualMeasName-methods	Extraction functions for "predictionResult" or "baselineAlgResult" objects

-- R --

rfbaseline	Robust Baseline Estimation
ridgeRegressionTest-class	Class "ridgeRegressionTest"
rollingBall	Rolling ball
runTest	Run a predictionTest or baselineAlgTest
runTest-method	Run a predictionTest or baselineAlgTest
runTest-methods	Run a predictionTest or baselineAlgTest

-- S --

shirley

Shirley Background Estimation

-- T --

TAP

TAP