TreatmentSelection: Evaluate Treatment Selection Biomarkers
Version 2.0.3

A suite of descriptive and inferential methods designed to evaluate one or more biomarkers for their ability to guide patient treatment recommendations. Package includes functions to assess the calibration of risk models; and plot, evaluate, and compare markers.

Browse man pages Browse package API and functions Browse package files

AuthorMarshall Brown and Holly Janes
Date of publication2017-02-09 10:18:33
MaintainerMarshall Brown <mdbrown@fhcrc.org>
LicenseGPL-2
Version2.0.3
URL http://mdbrown.github.io/TreatmentSelection/
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("TreatmentSelection")

Man pages

calibrate.trtsel: assess model calibration of a trtsel object
compare: method to compare trtsel objects
compare.trtsel: compare the performance of two treatment selection markers
evaluate.trtsel: evaluate the performance of one or more biomarkers for their...
is.trtsel: is x a trtsel object?
plot.trtsel: plot risk curves, treatment effect curves or cdf of risk for...
print.calibrate.trtsel: print a trtsel object
print.compare.trtsel: print a trtsel object
print.eval.trtsel: print a trtsel object
print.trtsel: print a trtsel object
print.trtsel_summary_measures: print output from 'trtsel_measures'
surv_tsdata: sample data for R package TreatmentSelection
TreatmentSelection-package: Evaluate markers used to guide patient treatment selection...
trtsel: create a trtsel object
trtsel_measures: a simple function to estimate performance measures for a rule...
tsdata: sample data for R package TreatmentSelection
tsdata_cc: sample nested case-control data for R package...
tsdata_scc: sample stratified nested case-control data for R package...

Functions

CDFdeltaPLOT_gg Source code
CDFdeltaPLOT_gg_disc Source code
EventRateVec Source code
SelectionImpactPLOT_gg Source code
Theta.cutoff Source code
TreatmentSelection Man page
TreatmentSelection-package Man page
boot.sample.case.control Source code
boot.sample.cohort Source code
boot.sample.stratified.case.control Source code
calibrate Man page Source code
calibrate.trtsel Man page Source code
compare Man page Source code
compare.trtsel Man page Source code
cover Source code
evaluate Man page Source code
evaluate.trtsel Man page Source code
expit Source code
get.F.case.control Source code
get.F.cohort Source code
get.F.cohort.survival Source code
get.F.stratified.case.control Source code
get.censoring.weights Source code
get.coef Source code
get.plot.ci Source code
get.plot.ci_disc Source code
get.risk.t Source code
get.risk.t_coxph Source code
get.summary.measures.case.control Source code
get.summary.measures.cohort Source code
get.summary.measures.cohort.survival Source code
get.summary.measures.stratified.case.control Source code
is.trtsel Man page Source code
logit Source code
logit.one Source code
myplotcompare.trtsel Source code
myplotcompare.trtsel_disc Source code
one.boot.compare Source code
one.boot.eval Source code
one.boot.plot Source code
one.boot.plot.compare Source code
one.boot.plot_disc Source code
plot Man page
plot.trtsel Man page Source code
predcurvePLOT_gg Source code
predcurvePLOT_gg_disc Source code
print.calibrate.trtsel Man page Source code
print.compare.trtsel Man page Source code
print.eval.trtsel Man page Source code
print.trtsel Man page Source code
print.trtsel_summary_measures Man page Source code
shade Source code
shade_gg Source code
sum.I Source code
surv_tsdata Man page
test.Null Source code
test.Null.warning Source code
trteffectPLOT_gg Source code
trteffectPLOT_gg_disc Source code
trteffectPLOTcompare_gg Source code
trteffectPLOTcompare_gg_disc Source code
trtsel Man page Source code
trtsel.boot Source code
trtsel_measures Man page Source code
tsdata Man page
tsdata_cc Man page
tsdata_scc Man page

Files

inst
inst/check.R
inst/todo.Rmd
inst/example
inst/example/example.R
inst/example/tutorial.md
inst/example/TreatmentSelectionExample.R
inst/example/checkSubCohortEstimation.R
inst/example/tutorial.html
inst/example/figure
inst/example/figure/unnamed-chunk-14.png
inst/example/figure/unnamed-chunk-15.png
inst/example/figure/unnamed-chunk-16.png
inst/example/figure/unnamed-chunk-6.png
inst/example/figure/unnamed-chunk-7.png
inst/example/figure/unnamed-chunk-18.png
inst/example/figure/unnamed-chunk-9.png
inst/example/figure/unnamed-chunk-10.png
inst/example/tutorial.Rmd
inst/example/tutorial_reference.html
NAMESPACE
NEWS
data
data/tsdata_scc.rda
data/surv_tsdata.rda
data/tsdata_cc.rda
data/tsdata.rda
R
R/evaluate.trtsel.R
R/myplotcompare.trtsel.R
R/EventRateVec.R
R/get.risk.R
R/one.boot.plot.R
R/calibrate.trtsel.R
R/TreatmentSelection-package.R
R/get.summary.measures.R
R/print.trtsel.R
R/boot.sample.R
R/get.plot.ci.R
R/get.F.R
R/one.boot.compare.R
R/timetoevent_subroutines.R
R/trtsel.boot.R
R/one.boot.eval.R
R/predcurvePLOT.R
R/plot.trtsel.R
R/get.coef.R
R/trteffectPLOT.R
R/estimate_measures.R
R/trtsel.R
R/subroutines.R
R/CDFdeltaPLOT.R
R/SelectionImpactPLOT_gg.R
R/is.trtsel.R
R/test.Null.R
R/compare.trtsel.R
README.md
MD5
DESCRIPTION
man
man/surv_tsdata.Rd
man/print.calibrate.trtsel.Rd
man/TreatmentSelection-package.Rd
man/print.trtsel_summary_measures.Rd
man/print.eval.trtsel.Rd
man/plot.trtsel.Rd
man/compare.trtsel.Rd
man/tsdata_scc.Rd
man/calibrate.trtsel.Rd
man/tsdata_cc.Rd
man/print.trtsel.Rd
man/compare.Rd
man/is.trtsel.Rd
man/tsdata.Rd
man/trtsel_measures.Rd
man/trtsel.Rd
man/print.compare.trtsel.Rd
man/evaluate.trtsel.Rd
TreatmentSelection documentation built on May 19, 2017, 3 p.m.