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Baseline Correction of Spectra - baseline

Installation

# Install release version from CRAN  
install.packages("baseline")  
# Install development version from GitHub  
devtools::install_github("khliland/baseline")

Contents

  • S4 interface baseline() with a range of baseline correction methods
    • 4S Peak Filling
    • Asymmetric Least Squares - ALS
    • IRLS
    • LowPass filtering
    • Median Window
    • Modified polynomial fitting
    • Peak Detection
    • Rolling Ball
    • RF baseline
    • Shirley
    • TAP
    • Common plotting function
  • Customized baseline correction
    • Interval stretch/compress for more adaptive baseline
  • Baseline optimisation for prediction and classification
    • Design of Experiments
    • Running of DoE
    • Analysis of results
  • Tcl/Tk based Graphical User Interface for baseline correction

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Version

Install

install.packages('baseline')

Monthly Downloads

1,045

Version

1.3-5

License

GPL-2

Issues

1

Pull Requests

0

Stars

9

Forks

1

Maintainer

Kristian Hovde Liland

Last Published

November 18th, 2023

Functions in baseline (1.3-5)

PLSRTest-class

Class "PLSRTest"
XPSdata

XPS core line data
baselineEnv

Baseline environment
predictionTest-class

Class "predictionTest"
qualMeas

Extraction functions for "predictionResult" or "baselineAlgResult" objects
baselineGUI

Interactive plotting tool
baseline.irls

Iterative Restricted Least Squares
baseline.lowpass

Low-pass FFT filter
baseline.TAP

TAP
baseline.als

Asymmetric Least Squares
baseline.rfbaseline

Robust Baseline Estimation
baselineAlgResult-class

Class "baselineAlgResult"
baselineAlgTest-class

Class "baselineAlgTest"
baseline.medianWindow

Median window
baseline.rollingBall

Rolling ball
custom.baseline

Customized baseline correction
funcName

Extract the "funcName" slot.
ind.min

Extraction methods specific for "predictionResult" objects
baseline.shirley

Shirley Background Estimation
baseline.peakDetection

Simultaneous Peak Detection and Baseline Correction
name

Extraction methods for "baselineAlg" objects
getBaseline

Functions to extract the components of a "baseline" object
ridgeRegressionTest-class

Class "ridgeRegressionTest"
milk

MALDI-TOF mass spectra
runTest

Run a predictionTest or baselineAlgTest
optimWizard

Visual tool for setting up optimization
baselineAlg-class

Class "baselineAlg"
plotOptim

Plotting tool for result objects from optimization
predictionResult-class

Class "predictionResult"
baselineAlgorithms

List of available baseline algorithms
doOptim

Optimise several baseline algorithms on a data set
baselineAlgorithmsGUI

List of available baseline algorithms for GUI function
param

Extract the "param" slot
overall.min

Extract the minimum from a baseline optimisation
param.ind.min

Extraction methods for "baselineAlgResult" objects
plotBaseline

Plot method for "baseline" objects
algorithm

Extraction methods for "baselineAlgTest" objects
baseline-class

Class "baseline"
baseline-package

Baseline correction
baseline

Baseline correction
baseline.modpolyfit

Modified polynomial fitting
baseline.fillPeaks

Fill peaks