survcomp: Performance Assessment and Comparison for Survival Analysis

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R package providing functions to assess and to compare the performance of risk prediction (survival) models.

Author
Benjamin Haibe-Kains, Markus Schroeder, Catharina Olsen, Christos Sotiriou, Gianluca Bontempi, John Quackenbush
Date of publication
None
Maintainer
Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca>, Markus Schroeder <markus.schroeder@ucdconnect.ie>, Catharina Olsen <colsen@ulb.ac.be>
License
Artistic-2.0
Version
1.24.0
URLs

View on Bioconductor

Man pages

breastCancerData
Sample data containing six datasets for gene expression,...
censor.time
Function to artificially censor survival data
cindex.comp
Function to compare two concordance indices
cindex.comp.meta
Function to compare two concordance indices
combine.est
Function to combine estimates
combine.test
Function to combine probabilities
concordance.index
Function to compute the concordance index for survival or...
cvpl
Function to compute the CVPL
D.index
Function to compute the D index
dindex.comp
Function to compare two D indices
dindex.comp.meta
Function to compare two D indices
fisherz
Function to compute Fisher z transformation
forestplot.surv
Forest plots enables to display performance estimates of...
getsurv2
Function to retrieve the survival probabilities at a specific...
hazard.ratio
Function to estimate the hazard ratio through Cox regression
hr.comp
Function to statistically compare two hazard ratios
hr.comp2
Function to statistically compare two hazard ratios...
hr.comp.meta
Function to compare two concordance indices
iauc.comp
Function to compare two IAUCs through time-dependent ROC...
ibsc.comp
Function to compare two IBSCs
km.coxph.plot
Function to plot several Kaplan-Meier survival curves
logpl
Function to compute the log partial likelihood of a Cox model
mainz7g
Subset of MAINZ dataset containing gene expression,...
metaplot.surv
Meta-analysis plot (forest plot)
mrmr.cindex
Function to compute the concordance index for survival or...
mrmr.cindex.ensemble
Function to compute the concordance index for survival or...
nki7g
Subset of NKI dataset containing gene expression, annotations...
no.at.risk
Function to compute the number of individuals at risk
sbrier.score2proba
Function to compute the BSCs from a risk score, for all the...
score2proba
Function to compute the survival probabilities from a risk...
survcomp-package
Performance Assessment and Comparison for Survival Analysis
tdrocc
Function to compute time-dependent ROC curves
td.sens.spec
Function to compute sensitivity and specificity for a binary...
test.hetero.est
Function to test the heterogeneity of set of probabilities
test.hetero.test
Function to test the heterogeneity of set of probabilities
transbig7g
Subset of the TRANSBIG dataset containing gene expression,...
unt7g
Subset of UNT dataset containing gene expression, annotations...
upp7g
Subset of UPP dataset containing gene expression, annotations...
vdx7g
Subset of VDX dataset containing gene expression, annotations...

Files in this package

survcomp/DESCRIPTION
survcomp/NAMESPACE
survcomp/R
survcomp/R/D.index.R
survcomp/R/censor.time.R
survcomp/R/cindex.comp.R
survcomp/R/cindex.comp.meta.R
survcomp/R/combine.est.R
survcomp/R/combine.test.R
survcomp/R/concordance.index.R
survcomp/R/cvpl.R
survcomp/R/dindex.comp.R
survcomp/R/dindex.comp.meta.R
survcomp/R/extract.all.parents.R
survcomp/R/fisherz.R
survcomp/R/forestplot.surv.R
survcomp/R/getsurv2.R
survcomp/R/hazard.ratio.R
survcomp/R/hr.comp.R
survcomp/R/hr.comp.meta.R
survcomp/R/hr.comp2.R
survcomp/R/iauc.comp.R
survcomp/R/ibsc.comp.R
survcomp/R/km.coxph.plot.R
survcomp/R/logpl.R
survcomp/R/metaplot.surv.R
survcomp/R/mrmr.cindex.R
survcomp/R/mrmr.cindex.ensemble.R
survcomp/R/no.at.risk.R
survcomp/R/sbrier.score2proba.R
survcomp/R/score2proba.R
survcomp/R/td.sens.spec.R
survcomp/R/tdrocc.R
survcomp/R/test.hetero.est.R
survcomp/R/test.hetero.test.R
survcomp/R/zzz.R
survcomp/build
survcomp/build/survcomp.pdf
survcomp/build/vignette.rds
survcomp/data
survcomp/data/breastCancerData.RData
survcomp/inst
survcomp/inst/CITATION
survcomp/inst/doc
survcomp/inst/doc/survcomp.R
survcomp/inst/doc/survcomp.Rnw
survcomp/inst/doc/survcomp.pdf
survcomp/man
survcomp/man/D.index.Rd
survcomp/man/breastCancerData.Rd
survcomp/man/censor.time.Rd
survcomp/man/cindex.comp.Rd
survcomp/man/cindex.comp.meta.Rd
survcomp/man/combine.est.Rd
survcomp/man/combine.test.Rd
survcomp/man/concordance.index.Rd
survcomp/man/cvpl.Rd
survcomp/man/dindex.comp.Rd
survcomp/man/dindex.comp.meta.Rd
survcomp/man/fisherz.Rd
survcomp/man/forestplot.surv.Rd
survcomp/man/getsurv2.Rd
survcomp/man/hazard.ratio.Rd
survcomp/man/hr.comp.Rd
survcomp/man/hr.comp.meta.Rd
survcomp/man/hr.comp2.Rd
survcomp/man/iauc.comp.Rd
survcomp/man/ibsc.comp.Rd
survcomp/man/km.coxph.plot.Rd
survcomp/man/logpl.Rd
survcomp/man/mainz7g.Rd
survcomp/man/metaplot.surv.Rd
survcomp/man/mrmr.cindex.Rd
survcomp/man/mrmr.cindex.ensemble.Rd
survcomp/man/nki7g.Rd
survcomp/man/no.at.risk.Rd
survcomp/man/sbrier.score2proba.Rd
survcomp/man/score2proba.Rd
survcomp/man/survcomp-package.Rd
survcomp/man/td.sens.spec.Rd
survcomp/man/tdrocc.Rd
survcomp/man/test.hetero.est.Rd
survcomp/man/test.hetero.test.Rd
survcomp/man/transbig7g.Rd
survcomp/man/unt7g.Rd
survcomp/man/upp7g.Rd
survcomp/man/vdx7g.Rd
survcomp/src
survcomp/src/concordance.index.c
survcomp/src/foo_mrmr_ensemble_surv.cpp
survcomp/src/foo_mrmr_ensemble_surv.h
survcomp/src/foo_mrmr_surv.cpp
survcomp/src/mrmr_surv.h
survcomp/src/survcomp.h
survcomp/src/tree.h
survcomp/vignettes
survcomp/vignettes/survcomp.Rnw