Function reference • ChemoSpec

Importing Data
`files2SpectraObject()` `matrix2SpectraObject()`	Import Data into a Spectra Object
Data Summaries
`sumGroups`	Summarize the Group Membership of a Spectra or Spectra2D Object
`sumSpectra`	Summarize a Spectra or Spectra2D Object
`surveySpectra()` `surveySpectra2()`	Plot Measures of Central Tendency and Spread for a Spectra Object
Pre-Processing Data Modifying/editing data
`removeFreq`	Remove Frequencies from a Spectra or Spectra2D Object
`removeGroup`	Remove Groups from a Spectra or Spectra2D Object
`updateGroups`	Update Group Names in a Spectra or Spectra2D Object
`splitSpectraGroups()`	Create New Groups from an Existing Spectra Object
`removeSample`	Remove Samples from a Spectra or Spectra2D Object
`baselineSpectra()`	Baseline Correction of a Spectra Object
`normSpectra()`	Normalize a Spectra Object
`binSpectra()`	Bin or Bucket a Spectra Object
`sgfSpectra()`	Apply Savitzky-Golay filters to a Spectra object
`clupaSpectra()`	Hierarchical Cluster-Based Peak Alignment on a Spectra Object
`averageReplicates()`	Average Replicates in a Spectra Object
Plots
`plotSpectra()`	Plot Spectra Object
`plotSpectraJS()`	Plot a Spectra Object Interactively
`reviewAllSpectra()`	Review All the Spectra in a Spectra Object
`surveySpectra()` `surveySpectra2()`	Plot Measures of Central Tendency and Spread for a Spectra Object
`plotScores`	Plot Scores from PCA, MIA or PARAFAC Analysis of a Spectra or Spectra2D Object
`plot3dScores()`	3D PCA Score Plot for a Spectra Object
`plotScree`	Scree Plots from PCA or MIA Analysis of a Spectra or Spectra2D Object
`plotLoadings()`	Plot PCA Loadings for a Spectra Object
`plot2Loadings()`	Plot PCA Loadings from a Spectra Object Against Each Other
`sPlotSpectra()`	s-Plot of Spectra Data (Post PCA)
`pcaDiag()`	Outlier Diagnostic Plots for PCA of a Spectra Object
`hcaScores`	HCA on PCA/MIA/PARAFAC scores from a Spectra or Spectra2D Object
`hcaSpectra()`	Plot HCA Results of a Spectra Object
`plotSpectraDist()`	Plot the Distance Between Spectra and a Reference Spectrum in a Spectra Object
`aovPCAloadings()`	Plot aovPCAscores Loadings of a Spectra Object
`aovPCAscores()`	Plot ANOVA-PCA Scores from a Spectra Object
`hmapSpectra()`	Seriated Heat Map for a Spectra Object
`sampleDist`	Compute the Distances Between Samples in a Spectra or Spectra2D Object
`mclust3dSpectra()`	mclust Analysis of a Spectra Object in 3D
Exploratory Data Analysis
`aov_pcaSpectra()`	ANOVA-PCA Analysis of Spectra Data
`c_pcaSpectra()`	Classical PCA of Spectra Objects
`r_pcaSpectra()`	Robust PCA of a Spectra Object
`cv_pcaSpectra()`	Cross-Validation of Classical PCA Results for a Spectra Object
`s_pcaSpectra()`	Sparse PCA of Spectra Objects
`irlba_pcaSpectra()`	IRLBA PCA of Spectra Objects
`hcaScores`	HCA on PCA/MIA/PARAFAC scores from a Spectra or Spectra2D Object
`hcaSpectra()`	Plot HCA Results of a Spectra Object
`evalClusters()`	Evaluate or Compare the Quality of Clusters Quantitatively
`hypTestScores()`	Conduct MANOVA using PCA Scores and Factors in a Spectra Object
`mclustSpectra()`	mclust Analysis of a Spectra Object PCA Results
Data Sets
`Spectra`	Spectra Objects
`SrE.IR` `SrE.NMR`	IR and NMR Spectra of Serenoa repens (Saw Palmetto) Oil Extracts and Reference Oils
`metMUD1` `alignMUD` `metMUD2`	Made Up NMR Data Sets
Utilities & Reference
`chkSpectra`	Verify the Integrity of a Spectra or Spectra2D Object
`check4Gaps`	Check for Discontinuities (Gaps) in a Vector & Optionally Make a Plot
`colorSymbol`	Color and Symbols in ChemoSpec and ChemoSpec2D
`conColScheme`	Change the Color Scheme of a Spectra or Spectra2D Object
`chkGraphicsOpt`	Check the Graphics Output Option/Mode
`rowDist`	Compute Distance Between Rows of a Matrix
`ChemoSpec-package` `ChemoSpec`	Exploratory Chemometrics for Spectroscopy

Reference

Importing Data

Data Summaries

Pre-Processing Data

Plots

Exploratory Data Analysis

Data Sets

Utilities & Reference