FRESA.CAD: Feature Selection Algorithms for Computer Aided Diagnosis

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

View on CRAN

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

Files in this package

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

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