VRPM: Visualizing Risk Prediction Models
Version 1.1

This is a package to visualize risk prediction models. For each predictor, a color bar represents the contribution to the linear predictor or latent variable. A conversion from the linear predictor to the estimated risk or survival is also given. (Cumulative) contribution charts enable to visualize how the estimated risk for one particular observation is obtained by the model. Several options allow to choose different color maps, and to select the zero level of the contributions. The package is able to deal with 'glm', 'coxph', 'mfp', 'multinom' and 'ksvm' objects. For 'ksvm' objects, the visualization is not always exact. Functions providing tools to indicate the accuracy of the approximation are provided in addition to the visualization.

AuthorVanya Van Belle
Date of publication2016-09-01 15:41:33
MaintainerVanya Van Belle <vanya.vanbelle@esat.kuleuven.be>
LicenseGPL-3
Version1.1
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("VRPM")

Popular man pages

ccchart: Cumulative contribution chart.
cchart: Contribution chart.
colplot: Visualize a risk prediction model by means of colored bars.
HTMLsummary: Summarize the risk prediction plots.
plotperf: Performance plots for the approximation of an SVM model.
preplotperf: Preprocess a 'ksvm' object
runVRPMexample: Run R Shiny app
See all...

All man pages Function index File listing

Man pages

ccchart: Cumulative contribution chart.
cchart: Contribution chart.
colplot: Visualize a risk prediction model by means of colored bars.
HTMLsummary: Summarize the risk prediction plots.
plotperf: Performance plots for the approximation of an SVM model.
preplotperf: Preprocess a 'ksvm' object
runVRPMexample: Run R Shiny app

Functions

Files

inst
inst/examples
inst/examples/HTMLsummaryex.R
inst/examples/plotperfex.R
inst/examples/colplotex.R
inst/examples/cchartex.R
inst/examples/ccchartex.R
inst/examples/Appex.R
inst/NEWS
inst/shiny-examples
inst/shiny-examples/Iris
inst/shiny-examples/Iris/ui.R
inst/shiny-examples/Iris/server.R
inst/shiny-examples/Iris/lps.png
inst/shiny-examples/Iris/colplot.png
inst/shiny-examples/Iris/www
inst/shiny-examples/Iris/www/empty.png
inst/shiny-examples/Iris/probs.png
inst/shiny-examples/Iris/ROC.png
inst/shiny-examples/Iris/links.png
inst/shiny-examples/Iris/contributions2.png
inst/shiny-examples/Iris/outcomes.png
inst/shiny-examples/Iris/ccchart.png
inst/shiny-examples/Iris/cchart.png
inst/shiny-examples/Iris/corrplot.png
inst/shiny-examples/Iris/ff.png
inst/shiny-examples/IntermittentClaudication
inst/shiny-examples/IntermittentClaudication/ui.R
inst/shiny-examples/IntermittentClaudication/server.R
inst/shiny-examples/IntermittentClaudication/colplot.png
inst/shiny-examples/IntermittentClaudication/www
inst/shiny-examples/IntermittentClaudication/www/empty.png
inst/shiny-examples/IntermittentClaudication/helpers.R
inst/shiny-examples/IntermittentClaudication/ccchart.png
inst/shiny-examples/IntermittentClaudication/cchart.png
inst/shiny-examples/xsnz
inst/shiny-examples/xsnz/ui.R
inst/shiny-examples/xsnz/server.R
inst/shiny-examples/xsnz/ccchartp_widowed_ccchart.png
inst/shiny-examples/xsnz/colplotp_married.png
inst/shiny-examples/xsnz/www
inst/shiny-examples/xsnz/www/empty.png
inst/shiny-examples/xsnz/colplot_patientsummary.png
inst/shiny-examples/xsnz/ccchart_divorced_ccchart.png
inst/shiny-examples/xsnz/colplotp_married_wing.png
inst/shiny-examples/xsnz/cchart_divorced_cchart.png
inst/shiny-examples/xsnz/colplotp_divorced.png
inst/shiny-examples/xsnz/colplotp_single.png
inst/shiny-examples/xsnz/ccchartp_divorced_ccchart.png
inst/shiny-examples/xsnz/colplot_widowed.png
inst/shiny-examples/xsnz/colplotp_widowed.png
inst/shiny-examples/xsnz/colplot_divorced.png
inst/shiny-examples/xsnz/colplot_patientsummary2.png
inst/shiny-examples/xsnz/ccchart_widowed_ccchart.png
inst/shiny-examples/xsnz/cchart_married_cchart.png
inst/shiny-examples/xsnz/cchartp_divorced_cchart.png
inst/shiny-examples/xsnz/ccchartp_married_ccchart.png
inst/shiny-examples/xsnz/cchartp_single_cchart.png
inst/shiny-examples/xsnz/ccchartp_single_ccchart.png
inst/shiny-examples/xsnz/cchartp_widowed_cchart.png
inst/shiny-examples/xsnz/cchart_widowed_cchart.png
inst/shiny-examples/xsnz/colplotp_divorced_wing.png
inst/shiny-examples/xsnz/ccchart_married_ccchart.png
inst/shiny-examples/xsnz/cchartp_married_cchart.png
inst/shiny-examples/xsnz/colplot_married.png
inst/shiny-examples/xsnz/colplotp_widowed_wing.png
inst/shiny-examples/Pima
inst/shiny-examples/Pima/ui.R
inst/shiny-examples/Pima/server.R
inst/shiny-examples/Pima/lps.png
inst/shiny-examples/Pima/colplot.png
inst/shiny-examples/Pima/www
inst/shiny-examples/Pima/www/empty.png
inst/shiny-examples/Pima/probs.png
inst/shiny-examples/Pima/colplot_B.png
inst/shiny-examples/Pima/ROC.png
inst/shiny-examples/Pima/links.png
inst/shiny-examples/Pima/contributions2.png
inst/shiny-examples/Pima/outcomes.png
inst/shiny-examples/Pima/ccchart.png
inst/shiny-examples/Pima/cchart.png
inst/shiny-examples/Pima/corrplot.png
inst/shiny-examples/Pima/ff.png
NAMESPACE
R
R/patientchartcode.R
R/colplotcode.R
R/cumpatientchartcode.R
R/svm_code.R
R/glmcoxphcode.R
R/APPcode.R
R/multinomLRcode.R
R/generalcode.R
MD5
DESCRIPTION
man
man/HTMLsummary.Rd
man/plotperf.Rd
man/cchart.Rd
man/preplotperf.Rd
man/runVRPMexample.Rd
man/colplot.Rd
man/ccchart.Rd
VRPM documentation built on May 19, 2017, 6:17 p.m.

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