Package: ROCnReg 1.0-9

ROCnReg: ROC Curve Inference with and without Covariates

Estimates the pooled (unadjusted) Receiver Operating Characteristic (ROC) curve, the covariate-adjusted ROC (AROC) curve, and the covariate-specific/conditional ROC (cROC) curve by different methods, both Bayesian and frequentist. Also, it provides functions to obtain ROC-based optimal cutpoints utilizing several criteria. Based on Erkanli, A. et al. (2006) <doi:10.1002/sim.2496>; Faraggi, D. (2003) <doi:10.1111/1467-9884.00350>; Gu, J. et al. (2008) <doi:10.1002/sim.3366>; Inacio de Carvalho, V. et al. (2013) <doi:10.1214/13-BA825>; Inacio de Carvalho, V., and Rodriguez-Alvarez, M.X. (2022) <doi:10.1214/21-STS839>; Janes, H., and Pepe, M.S. (2009) <doi:10.1093/biomet/asp002>; Pepe, M.S. (1998) <http://www.jstor.org/stable/2534001?seq=1>; Rodriguez-Alvarez, M.X. et al. (2011a) <doi:10.1016/j.csda.2010.07.018>; Rodriguez-Alvarez, M.X. et al. (2011a) <doi:10.1007/s11222-010-9184-1>. Please see Rodriguez-Alvarez, M.X. and Inacio, V. (2021) <doi:10.32614/RJ-2021-066> for more details.

Authors:Maria Xose Rodriguez-Alvarez [aut, cre], Vanda Inacio [aut]

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ROCnReg.pdf |ROCnReg.html✨
ROCnReg/json (API)
NEWS

# Install 'ROCnReg' in R:
install.packages('ROCnReg', repos = c('https://coterodriguez.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • endosyn - Simulated endocrine data.
  • psa - Prostate specific antigen (PSA) biomarker study.

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

30 exports 1 stars 0.23 score 17 dependencies 46 scripts 975 downloads

Last updated 4 months agofrom:9afa291b8a. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKAug 30 2024
R-4.5-winOKAug 30 2024
R-4.5-linuxOKAug 30 2024
R-4.4-winOKAug 30 2024
R-4.4-macOKAug 30 2024
R-4.3-winOKAug 30 2024
R-4.3-macOKAug 30 2024

Exports:AROC.bnpAROC.kernelAROC.spcompute.threshold.AROCcompute.threshold.cROCcompute.threshold.pooledROCcROC.bnpcROC.kernelcROC.spcROCDatadensitycontroldensitycontrol.arocmcmccontrolpauccontrolplot.AROCplot.cROCplot.pooledROCpooledROC.BBpooledROC.dpmpooledROC.emppooledROC.kernelpredictive.checksprint.AROCprint.cROCprint.pooledROCpriorcontrol.bnppriorcontrol.dpmsummary.AROCsummary.cROCsummary.pooledROC

Dependencies:bootcubaturelatticeMASSMatrixMatrixModelsmomentsnor1mixnppbivnormquadprogquantregRcppSparseMspatstat.univarspatstat.utilssurvival

Readme and manuals

Help Manual

Help pageTopics
ROC Curve Inference with and without CovariatesROCnReg-package ROCnReg
Nonparametric Bayesian inference of the covariate-adjusted ROC curve (AROC).AROC.bnp
Nonparametric kernel-based estimation of the covariate-adjusted ROC curve (AROC).AROC.kernel
Semiparametric frequentist inference for the covariate-adjusted ROC curve (AROC).AROC.sp
AROC based threshold values.compute.threshold.AROC
Covariate-specific ROC based threshold values.compute.threshold.cROC
Pooled ROC based threshold values.compute.threshold.pooledROC
Nonparametric Bayesian inference for the covariate-specific ROC curve (cROC).cROC.bnp
Nonparametric kernel-based estimation of the covariate-specific ROC curve (cROC).cROC.kernel
Parametric and semiparametric frequentist inference of the covariate-specific ROC curve (cROC).cROC.sp
Selects an adequate set of points from a data set for obtaining predictions.cROCData
(Conditional) density estimates of test outcomesdensitycontrol
Conditional density estimates of test outcomes in the healthy populationdensitycontrol.aroc
Simulated endocrine data.endosyn
Markov chain Monte Carlo (MCMC) parametersmcmccontrol
Partial area under the covariate-adjusted/covariate-specific/pooled ROC curvepauccontrol
Default AROC plottingplot.AROC
Default cROC plottingplot.cROC
Default pooledROC plottingplot.pooledROC
Bayesian bootstrap estimation of the pooled ROC curve.pooledROC.BB
Nonparametric Bayesian inference of the pooled ROC curvepooledROC.dpm
Empirical estimation of the pooled ROC curve.pooledROC.emp
Kernel-based estimation of the pooled ROC curve.pooledROC.kernel
Posterior predictive checks.predictive.checks
Print method for 'AROC' objectsprint.AROC
Print method for 'cROC' objectsprint.cROC
Print method for 'pooledROC' objectsprint.pooledROC
Prior information for the 'AROC.bnp' and 'cROC.bnp'priorcontrol.bnp
Prior information for the 'pooledROC.dpm'priorcontrol.dpm
Prostate specific antigen (PSA) biomarker study.psa
Summary method for 'AROC' objectssummary.AROC
Summary method for 'cROC' objectssummary.cROC
Summary method for 'pooledROC' objectssummary.pooledROC