# PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis and feature selection of omics data

## Documentation for package ‘ropls’ version 1.34.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

ropls-package | PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis and feature selection of omics data
aminoacids | Amino-Acids Dataset
cellulose | NIR-Viscosity example data set to illustrate multivariate calibration using PLS, spectral filtering and OPLS
checkW4M | Checking the consistency of a SummarizedExperiment or ExpressionSet instance with W4M format
checkW4M-method | Checking the consistency of a SummarizedExperiment or ExpressionSet instance with W4M format
coef-method | Coefficients method for (O)PLS models
coef.opls | Coefficients method for (O)PLS models
cornell | Octane of various blends of gasoline
fitted-method | Fitted method for 'opls' objects
fitted.opls | Fitted method for 'opls' objects
foods | Food consumption patterns accross European countries (FOODS)
fromW4M | fromW4M
getEset | getEset method
getEset, | getEset method
getEset-method | getEset method
getLoadingMN | getLoadingMN method for PCA/(O)PLS(-DA) models
getLoadingMN-method | getLoadingMN method for PCA/(O)PLS(-DA) models
getMset | getMset method
getMset, | getMset method
getMset-method | getMset method
getOpls | Getting the models from a SummarizedExperiment or a MultiAssayExperiment object
getOpls-method | Getting the models from a SummarizedExperiment or a MultiAssayExperiment object
getPcaVarVn | getPcaVarVn method for PCA models
getPcaVarVn-method | getPcaVarVn method for PCA models
getScoreMN | getScoreMN method for PCA/(O)PLS(-DA) models
getScoreMN-method | getScoreMN method for PCA/(O)PLS(-DA) models
getSubsetVi | getSubsetVi method for (O)PLS(-DA) models
getSubsetVi-method | getSubsetVi method for (O)PLS(-DA) models
getSummaryDF | getSummaryDF method for PCA/(O)PLS models
getSummaryDF-method | getSummaryDF method for PCA/(O)PLS models
getVipVn | getVipVn method for (O)PLS(-DA) models
getVipVn-method | getVipVn method for (O)PLS(-DA) models
getWeightMN | getWeightMN method for (O)PLS(-DA) models
getWeightMN-method | getWeightMN method for (O)PLS(-DA) models
gg_scoreplot | PCA and (O)PLS(-DA) score plots
gg_scoreplot-method | PCA and (O)PLS(-DA) score plots
imageF | view
linnerud | Linnerud Dataset
lowarp | A multi response optimization data set (LOWARP)
mark | 'mark' Dataset
NCI60 | Microarray gene expression profiles of the NCI 60 cell lines from 4 different platforms
opls | PCA, PLS(-DA), and OPLS(-DA)
opls-class | Class "opls"
opls-method | getEset method
opls-method | PCA, PLS(-DA), and OPLS(-DA)
oplsMultiDataSet-class | Class "oplsMultiDataSet"
oplsMultiDataSet-method | getMset method
plot-method | Plot Method for (O)PLS(-DA)
plot.opls | Plot Method for (O)PLS(-DA)
plot.oplsMultiDataSet | Plot Method for (O)PLS(-DA)
predict-method | Predict method for (O)PLS models
predict.opls | Predict method for (O)PLS models
print-method | Print method for 'opls' objects
print.opls | Print method for 'opls' objects
residuals | Residuals method for (O)PLS models
residuals-method | Residuals method for (O)PLS models
residuals.opls | Residuals method for (O)PLS models
ropls | PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis and feature selection of omics data
sacurine | Analysis of the human adult urinary metabolome variations with age, body mass index and gender
show-method | Show method for 'opls' objects
show.opls | Show method for 'opls' objects
strF | view
tested | Tested method for (O)PLS models
tested-method | Tested method for (O)PLS models
toW4M | Exporting a SummarizedExperiment or ExpressionSet instance into 3 tabulated files.
toW4M-method | Exporting a SummarizedExperiment or ExpressionSet instance into 3 tabulated files.
view | view
view-method | view