FRESA.CAD: Feature Selection Algorithms for Computer Aided Diagnosis
Version 2.2.1

Contains a set of utilities for building and testing formula-based models (linear, logistic or COX) for Computer Aided Diagnosis/Prognosis applications. Utilities include data adjustment, univariate analysis, model building, model-validation, longitudinal analysis, reporting and visualization.

AuthorJose Gerardo Tamez-Pena, Antonio Martinez-Torteya and Israel Alanis
Date of publication2016-09-10 18:02:27
MaintainerJose Gerardo Tamez-Pena <jose.tamezpena@itesm.mx>
LicenseLGPL (>= 2)
Version2.2.1
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("FRESA.CAD")

Getting started

Package overview

Popular man pages

backVarElimination.Bin: IDI/NRI-based backwards variable elimination
crossValidationFeatureSelection.Bin: IDI/NRI-based selection of a linear, logistic, or Cox...
improvedResiduals: Estimate the significance of the reduction of predicted...
plot.bootstrapValidation.Bin: Plot ROC curves of bootstrap results
rankInverseNormalDataFrame: Perform a z-transformation of the data using the rank-based...
reportEquivalentVariables: Report the set of variables that will perform an equivalent...
timeSeriesAnalysis: Fit the listed time series variables to a given model
See all...

All man pages Function index File listing

Man pages

backVarElimination.Bin: IDI/NRI-based backwards variable elimination
backVarElimination.Res: NeRI-based backwards variable elimination
baggedModel: Get the bagged model from a list of forward models
bootstrapValidation.Bin: Bootstrap validation of binary classification models
bootstrapValidation.Res: Bootstrap validation of regression models
bootstrapVarElimination.Bin: IDI/NRI-based backwards variable elimination with...
bootstrapVarElimination.Res: NeRI-based backwards variable elimination with bootstrapping
CancerVarNames: Data frame used in several examples of this package
crossValidationFeatureSelection.Bin: IDI/NRI-based selection of a linear, logistic, or Cox...
crossValidationFeatureSelection.Res: NeRI-based selection of a linear, logistic, or Cox...
featureAdjustment: Adjust each listed variable to the provided set of covariates
ForwardModel.Bin: IDI/NRI-based feature selection procedure for linear,...
ForwardModel.Res: NeRI-based feature selection procedure for linear, logistic,...
FRESA.CAD-package: FeatuRE Selection Algorithms for Computer-Aided Diagnosis...
FRESA.Model: Automated model selection
getKNNpredictionFromFormula: Predict classification using KNN
getVar.Bin: Analysis of the effect of each term of a binary...
getVar.Res: Analysis of the effect of each term of a linear regression...
heatMaps: Plot a heat map of selected variables
improvedResiduals: Estimate the significance of the reduction of predicted...
listTopCorrelatedVariables: List the variables that are highly correlated with each other
medianPredict: The median prediction from a list of models
modelFitting: Fit a model to the data
plot.bootstrapValidation.Bin: Plot ROC curves of bootstrap results
plot.bootstrapValidation.Res: Plot ROC curves of bootstrap results
plotModels.ROC: Plot test ROC curves of each cross-validation model
predictForFresa: Linear or probabilistic prediction
rankInverseNormalDataFrame: Perform a z-transformation of the data using the rank-based...
reportEquivalentVariables: Report the set of variables that will perform an equivalent...
residualForFRESA: Return residuals from prediction
summary.bootstrapValidation: Generate a report of the results obtained using the...
summaryReport: Report the univariate analysis, the cross-validation analysis...
timeSeriesAnalysis: Fit the listed time series variables to a given model
uniRankVar: Univariate analysis of features (additional values returned)
univariateRankVariables: Univariate analysis of features
updateModel.Bin: Update the IDI/NRI-based model using new data or new...
updateModel.Res: Update the NeRI-based model using new data or new threshold...
update.uniRankVar: Update the univariate analysis using new data

Functions

FRESA.CAD Man page
FRESA.CAD-package Man page
FRESA.Model Man page Source code
ForwardSelection.Model.Bin Man page Source code
ForwardSelection.Model.Res Man page Source code
backVarElimination_Bin Man page Source code
backVarElimination_Res Man page Source code
baggedModel Man page Source code
bootstrapValidation_Bin Man page Source code
bootstrapValidation_Res Man page Source code
bootstrapVarElimination_Bin Man page Source code
bootstrapVarElimination_Res Man page Source code
cancerVarNames Man page
crossValidationFeatureSelection_Bin Man page Source code
crossValidationFeatureSelection_Res Man page Source code
featureAdjustment Man page Source code
getKNNpredictionFromFormula Man page Source code
getVar.Bin Man page Source code
getVar.Res Man page Source code
heatMaps Man page Source code
improvedResiduals Man page Source code
listTopCorrelatedVariables Man page Source code
medianPredict Man page Source code
modelFitting Man page Source code
plot Man page
plot.bootstrapValidation_Bin Man page Source code
plot.bootstrapValidation_Res Man page Source code
plotModels.ROC Man page Source code
predictForFresa Man page Source code
rankInverseNormalDataFrame Man page Source code
reportEquivalentVariables Man page Source code
residualForFRESA Man page Source code
summary Man page
summary.bootstrapValidation_Bin Man page Source code
summaryReport Man page Source code
timeSerieAnalysis Man page Source code
uniRankVar Man page Source code
univariateRankVariables Man page Source code
update Man page
update.uniRankVar Man page Source code
updateModel.Bin Man page Source code
updateModel.Res Man page Source code

Files

src
src/FRESAcommons.cpp
src/Makevars
src/FRESAcommons.h
src/rankInverseNormalCpp.cpp
src/regresionFeatureSelectionCpp.cpp
src/Makevars.win
src/binaryFeatureSelectionCpp.cpp
NAMESPACE
NEWS
data
data/cancerVarNames.rda
R
R/update.uniRankVar.R
R/getVar.Res.R
R/medianPredict.R
R/ForwardSelection.Model.Bin.R
R/plotModels.ROC.R
R/crossValidationFeatureSelection.Res.R
R/getVar.Bin.R
R/featureAdjustment.R
R/bootstrapVarElimination.Bin.R
R/heatMaps.R
R/improvedResiduals.R
R/timeSerieAnalysis.R
R/plot.bootstrapValidation.Res.R
R/FRESA.Model.R
R/backVarElimination.Bin.R
R/reportEquivalentVariables.R
R/ForwardSelection.Model.Res.R
R/predictForFresa.R
R/summary.bootstrapValidation.R
R/updateModel.Bin.R
R/modelFitting.R
R/rankInverseNormalDataFrame.R
R/backVarElimination.Res.R
R/updateModel.Res.R
R/bootstrapValidation.Res.R
R/bootstrapValidation.Bin.R
R/uniRankVar.R
R/listTopCorrelatedVariables.R
R/univariateRankVariables.R
R/getKNNpredictionFromFormula.R
R/crossValidationFeatureSelection.Bin.R
R/summaryReport.R
R/plot.bootstrapValidation.Bin.R
R/residualtForFRESA.R
R/bootstrapVarElimination.Res.R
R/baggedModel.R
MD5
DESCRIPTION
man
man/summary.bootstrapValidation.Rd
man/crossValidationFeatureSelection.Bin.Rd
man/ForwardModel.Res.Rd
man/FRESA.CAD-package.Rd
man/CancerVarNames.Rd
man/bootstrapValidation.Bin.Rd
man/bootstrapVarElimination.Bin.Rd
man/backVarElimination.Res.Rd
man/modelFitting.Rd
man/updateModel.Res.Rd
man/bootstrapValidation.Res.Rd
man/summaryReport.Rd
man/timeSeriesAnalysis.Rd
man/plot.bootstrapValidation.Bin.Rd
man/baggedModel.Rd
man/ForwardModel.Bin.Rd
man/improvedResiduals.Rd
man/medianPredict.Rd
man/plotModels.ROC.Rd
man/backVarElimination.Bin.Rd
man/plot.bootstrapValidation.Res.Rd
man/listTopCorrelatedVariables.Rd
man/update.uniRankVar.Rd
man/bootstrapVarElimination.Res.Rd
man/heatMaps.Rd
man/FRESA.Model.Rd
man/univariateRankVariables.Rd
man/uniRankVar.Rd
man/getVar.Res.Rd
man/getKNNpredictionFromFormula.Rd
man/residualForFRESA.Rd
man/updateModel.Bin.Rd
man/featureAdjustment.Rd
man/crossValidationFeatureSelection.Res.Rd
man/predictForFresa.Rd
man/reportEquivalentVariables.Rd
man/getVar.Bin.Rd
man/rankInverseNormalDataFrame.Rd
FRESA.CAD documentation built on May 20, 2017, 5:51 a.m.

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