Package: FrailtyPackPlus 0.1.0

Shikhar Tyagi

FrailtyPackPlus: Shared, Correlated, Additive, and Zero-Inflated Frailty Models

Fits and compares shared, correlated, additive, zero-inflated promotion cure-rate, and k-out-of-M one-shot device frailty survival models under Bayesian Markov chain Monte Carlo (MCMC) and Maximum Likelihood Estimation (MLE) frameworks. Supports ten baseline hazard distributions (Weibull, Exponential, Generalized Exponential, Exponential Power, Linear Failure Rate, Generalized Log-Logistic, Generalized Weibull, Generalized Rayleigh, Weighted Exponential, Extended Weibull) and eight frailty distributions (Gamma, Inverse Gaussian, Positive Stable, Compound Poisson, Compound Negative Binomial, Generalized Lindley, Weighted Lindley, Mixture of Inverse Gaussians). Implements reversed hazard rate (RHR) models for bivariate left-censored survival data, additive shared frailty models under random right censoring, and one-shot device reliability analysis. Provides goodness-of-fit testing, information criteria (AIC, BIC, AICc, HQIC, DIC, EAIC, EBIC, LPML), convergence diagnostics (Geweke, Gelman-Rubin, Heidelberger-Welch), Bayes factors, residual analyses, and diagnostic visualizations. Methodologies are based on Hanagal and Dabade (2013) <doi:10.1016/j.spl.2013.07.015>, Hanagal and Dabade (2013) <doi:10.1080/03610918.2012.661909>, Hanagal and Dabade (2015) <doi:10.1080/03610926.2013.804561>, Hanagal and Bhambure (2015) <doi:10.3233/MAS-140308>, Hanagal and Bhambure (2016) <doi:10.1080/03610926.2014.901380>, Hanagal, Pandey, and Ganguly (2017) <doi:10.1080/03610918.2015.1085559>, Hanagal and Pandey (2018) <doi:10.1080/03610926.2018.1549256>, Hanagal (2020) <doi:10.1080/03610926.2020.1736305>, Tyagi et al. (2021) <doi:10.1007/s40314-021-01666-5>, Pandey, Hanagal, Tyagi, and Gupta (2021) <doi:10.1142/S0218539321500406>, Tyagi, Pandey, and Chesneau (2022) <doi:10.1007/s42519-021-00241-9>, Pandey, Hanagal, and Tyagi (2022) <doi:10.2478/stattrans-2022-0048>, Tyagi, Pandey, and Chesneau (2022) <doi:10.1007/s13571-022-00278-1>, Tyagi, Pandey, Hanagal, and Chesneau (2024) <doi:10.1080/03610918.2024.2391874>, Kiprotich et al. (2025) <doi:10.1080/02664763.2025.2560510>, Assuncao et al. (2026) <doi:10.1002/bimj.70162>, Chen et al. (1999) <doi:10.1080/01621459.1999.10474198>, Dunn and Smyth (1996) <doi:10.1080/10618600.1996.10474708>, Ling et al. (2021) <doi:10.3390/math9233032>, Yu, So, and Balakrishnan (2025) <doi:10.1016/B978-0-44-331694-4.00006-2>, Balakrishnan, Ling, and So (2021, ISBN:978-1-119-77795-3), and McGilchrist and Aisbett (1991) <doi:10.2307/2532138>.

Authors:Shikhar Tyagi [aut, cre]

FrailtyPackPlus_0.1.0.tar.gz
FrailtyPackPlus_0.1.0.zip(r-4.7-any)FrailtyPackPlus_0.1.0.zip(r-4.6-any)
FrailtyPackPlus_0.1.0.tar.gz(r-4.7-any)FrailtyPackPlus_0.1.0.tar.gz(r-4.6-any)
FrailtyPackPlus_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
FrailtyPackPlus/json (API)

# Install 'FrailtyPackPlus' in R:
install.packages('FrailtyPackPlus', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • austrian_twin - Dataset documentation for Frailty package Australian Twin Appendectomy Data
  • classH - Modified Class-H Failure Modes Data
  • insulin_gdm - Time to Insulin Initiation in Gestational Diabetes Mellitus Dataset
  • kidney_bivariate - Kidney Infection Recurrence Bivariate Survival Data
  • kidney_frailty - Kidney Infection Recurrence Data
  • kidney_infection - Kidney Infection Bivariate Survival Dataset
  • mice_tumor - ED01 Mice Tumor Toxicological Data
  • retinopathy_frailty - Diabetic Retinopathy Study Paired Eye Data
  • sim_data4 - Simulated One-Shot Device Test Data with 4 Failure Modes

On CRAN:

Conda:

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

1.00 score 118 exports 5 dependencies

Last updated from:94638b8574. Checks:6 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK178
source / vignettesOK209
linux-releaseOK186
windows-develOK178
windows-releaseOK158
wasm-releaseOK98

Exports:adaptive_metropolisbase_cumhazbase_hazbayes_factorbayes_factor_rhrcalc_bayes_factorcalc_esscalc_gelman_rubincalc_gewekecalc_heidelberger_welchcalc_hpdcalc_ks_testcalc_loss_estimatescalc_model_criteriacompare_rhr_modelscomponent_momentscompute_mcmc_diagnosticscompute_p0_p1compute_probabilitiescond_prob_rhrcorrFrailtycorrFrailty.controlcpocrhr_baselinecross_ratio_rhrcumh_gll2cumh_gwd_genlindleyd_rhr_baselined_wlindleyd2laplace_frailtydens_properdiagnostics_mcmcdicdlaplace_frailtyeaicebicem_oneshot_frailtyem_oneshot_kofmeval_baselineeval_laplaceevaluate_zipromfb_calc_gewekefb_sim_frailtyfisher_info_oneshotfit_add_frailty_bayesfit_add_frailty_mlefit_rhr_frailty_bayesfit_rhr_frailty_mleforecast_zipromfrailty_bayesfrailty_comparefrailty_fitfrailty_mlefrailty_variancegenerate_powerseth_gll2h_gwhpd_intervalkendall_taukendall_tau_rhrlaplace_deriv1_gammalaplace_deriv1_genlindleylaplace_deriv1_invgaussianlaplace_deriv1_wlindleylaplace_deriv2_gammalaplace_deriv2_genlindleylaplace_deriv2_invgaussianlaplace_deriv2_wlindleylaplace_frailtylaplace_gammalaplace_genlindleylaplace_invgaussianlaplace_wlindleyloglik_add_frailtyloglik_biv_rhrloglik_frailtyloglik_oneshotlpmlmttf_k_out_of_moneshot_frailtyoneshot_kofmp_rhr_baselineplot_activation_compareplot_forecastplot_quantile_residualsplot_survival_fitq_rhr_baselinequantile_properr_frailtyreliability_k_out_of_mrhr_baselinerzicr_promotions_gll2s_gwsim_add_frailtysim_biv_rhr_frailtysim_copulasim_corrFrailtysim_frailtysim_oneshotsim_oneshot_frailtysim_oneshot_frailty_lifetimessim_zipromSurvsurv_propertest_baselinetest_independencevar_frailtyvar_gammavar_genlindleyvar_invgaussianvar_wlindleyziprom_core_densziprom_core_survziprom_fitziprom_loglikziprom_residuals

Dependencies:latticeMASSMatrixnumDerivsurvival

Readme and manuals

Help Manual

Help pageTopics
Dataset documentation for Frailty package Australian Twin Appendectomy Dataaustrian_twin
Cumulative Baseline Hazard Functionbase_cumhaz
Baseline Hazard Functionbase_haz
Bayes Factor Comparison Between Two Modelsbayes_factor
Bayes Factor Calculation for Model Comparisonbayes_factor_rhr
Bayesian Point Estimation and Posterior Risks under Multiple Loss Functionscalc_loss_estimates
Modified Class-H Failure Modes DataclassH
Extract Model Coefficientscoef.oneshot_kofm
Compare Competing Shared RHR Frailty Modelscompare_rhr_models
Expected Component Lifetimes and Momentscomponent_moments
Marginal Moments for Components under Shared Gamma Frailtycomponent_moments.oneshot_frailty
Marginal Component Momentscomponent_moments.oneshot_kofm
Convergence and Summary Diagnostics for MCMC Chainscompute_mcmc_diagnostics
Compute Multinomial Logit Probabilities for Zero-Inflation and Cure Fractioncompute_p0_p1
Joint Survival and Subset Malfunction Probabilitiescompute_probabilities
Conditional Probability Measure under Reversed Hazard Ratecond_prob_rhr
Confidence Intervals for Model Parametersconfint.oneshot_kofm
Fit Correlated Frailty Models for Bivariate Survival DatacorrFrailty
Control Parameters for corrFrailty EstimationcorrFrailty.control
Conditional Predictive Ordinate (CPO) and Log Pseudo Marginal Likelihood (LPML)cpo
Baseline Cumulative Reversed Hazard Rate Functioncrhr_baseline
Model Selection Criteria and Bayes Factor Comparisonscalc_bayes_factor calc_model_criteria criteria
Clayton-Oakes Cross-Ratio Function under Reversed Hazard Ratecross_ratio_rhr
Baseline Probability Density Function under Reversed Hazard Rated_rhr_baseline
Second Derivative of Laplace Transform of Frailty Distributionsd2laplace_frailty
Proper Conditional Density Function for Susceptible Groupdens_proper
Dependence Measures and Theoretical Frailty Variancedependence frailty_variance kendall_tau
MCMC Convergence Diagnosticsdiagnostics_mcmc
Deviance Information Criterion (DIC)dic
First Derivative of Laplace Transform of Frailty Distributionsdlaplace_frailty
Expected Akaike Information Criterion (EAIC)eaic
Expected Bayesian Information Criterion (EBIC)ebic
Expectation-Maximization Algorithm for One-Shot Device Testing Dataem_oneshot_frailty
Expectation-Maximization Algorithm for One-Shot Devicesem_oneshot_kofm
Evaluation Metrics and Residual Diagnostics for Zero-Inflated Promotion Modelsevaluate_ziprom ziprom_residuals
Simulate Survival Data with Shared or Univariate Frailtyfb_sim_frailty
Observed Fisher Information Matrix for One-Shot Devicesfisher_info_oneshot
Bayesian Estimation for Additive Shared Frailty Models via MCMCfit_add_frailty_bayes
Maximum Likelihood Estimation for Additive Shared Frailty Modelsfit_add_frailty_mle
Bayesian Estimation of Shared Frailty Models under Reversed Hazard Ratefit_rhr_frailty_bayes
Maximum Likelihood Estimation for Shared RHR Frailty Modelsfit_rhr_frailty_mle
Extract Fitted Valuesfitted.oneshot_kofm
Multi-Level Significance Survival Forecastingforecast_ziprom
Bayesian Estimation of Shared, Additive, and Multiplicative Frailty Modelsfrailty_bayes
Model Comparison Table for Frailty Modelsfrailty_compare
Unified Formula Interface for Frailty Modelsfrailty_fit
Maximum Likelihood Estimation of Shared Frailty Modelsfrailty_mle
Generate Power Set of Componentsgenerate_powerset
Highest Posterior Density (HPD) Credible Intervalhpd_interval
Time to Insulin Initiation in Gestational Diabetes Mellitus Datasetinsulin_gdm
Kendall's Tau Measure of Dependencekendall_tau_rhr
Kidney Infection Recurrence Bivariate Survival Datakidney_bivariate
Kidney Infection Recurrence Datakidney_frailty
Kidney Infection Bivariate Survival Datasetkidney_infection
Laplace Transform of Frailty Distributionslaplace_frailty
Bivariate Survival Log-Likelihood for Additive Shared Frailty Modelsloglik_add_frailty
Bivariate Left-Censored Log-Likelihood under Reversed Hazard Rateloglik_biv_rhr
Log-Likelihood Function for One-Shot Devicesloglik_oneshot
Model Extraction MethodslogLik.frailty_bayes
Extract Model Log-LikelihoodlogLik.oneshot_kofm
Log Pseudo Marginal Likelihood (LPML)lpml
ED01 Mice Tumor Toxicological Datamice_tumor
Mean Time to Failure (MTTF) for k-out-of-M Systemsmttf_k_out_of_m
Mean Time to Failure (MTTF) for k-out-of-M Systemsmttf_k_out_of_m.oneshot_frailty
Mean Lifetime and Confidence Intervals for k-Out-of-M Systemsmttf_k_out_of_m.oneshot_kofm
Fit Shared Gamma Frailty Model for One-Shot Device Testing Dataoneshot_frailty
Fit Shared Gamma Frailty Model for k-Out-of-M One-Shot Devicesoneshot_kofm
Baseline Cumulative Distribution Function under Reversed Hazard Ratep_rhr_baseline
Compare Survival Curves Across Activation Schemesplot_activation_compare
Diagnostic and Visualization Plots for Additive Shared Frailty Modelsplot.add_frailty
S3 Plot Method for Bayesian Frailty Modelsplot.frailty_bayes
Diagnostic and Reliability Plots for One-Shot Device Testingplot.oneshot_frailty
Diagnostic and Visual Plots for One-Shot Frailty Modelsplot.oneshot_kofm
Plot Diagnostics for Bayesian Shared RHR Frailty Modelplot.rhr_bayes_fit
Plot Diagnostics for Maximum Likelihood Shared RHR Frailty Modelplot.rhr_mle_fit
Plot Diagnostics and Survival Curves for ziprom_fit Objectsplot.ziprom_fit plot_forecast plot_quantile_residuals plot_survival_fit
Predict Method for Frailty Modelspredict.frailty_bayes
Predict System Reliability or Hazard Ratespredict.oneshot_kofm
Prediction and Multi-Level Significance Forecasting for ziprom_fit Modelspredict.ziprom_fit
Print Methods for Frailty Modelsprint.frailty_bayes
Print Method for One-Shot Frailty Model Fitsprint.oneshot_kofm
Print Summary for One-Shot Frailty Model Fitsprint.summary.oneshot_kofm
Methods for ziprom_fit ObjectsAIC.ziprom_fit BIC.ziprom_fit coef.ziprom_fit confint.ziprom_fit logLik.ziprom_fit print.summary.ziprom_fit print.ziprom_fit residuals.ziprom_fit summary.ziprom_fit vcov.ziprom_fit
Baseline Quantile Function under Reversed Hazard Rateq_rhr_baseline
Quantile Function for Susceptible Groupquantile_proper
Reliability Evaluation for k-out-of-M Systemsreliability_k_out_of_m
System Reliability for k-out-of-M Systems under Gamma Frailtyreliability_k_out_of_m.oneshot_frailty
Reliability Evaluation for k-Out-of-M Systemsreliability_k_out_of_m.oneshot_kofm
Residuals for Frailty Modelsresiduals.frailty_bayes
Extract Pearson Residualsresiduals.oneshot_kofm
Diabetic Retinopathy Study Paired Eye Dataretinopathy_frailty
Baseline Reversed Hazard Rate Functionrhr_baseline
Random Sample Generator for Zero-Inflated Promotion Modelsrzicr_promotion
Simulate Bivariate Survival Data under Additive Shared Frailty Modelssim_add_frailty
Simulate Bivariate Left-Censored Survival Data under Shared RHR Frailtysim_biv_rhr_frailty
Simulate Dependent Component Lifetimes via Clayton Copulasim_copula
Simulate Bivariate Survival Data with Correlated Frailtysim_corrFrailty
Simulated One-Shot Device Test Data with 4 Failure Modessim_data4
Simulate Frailty Survival Data or One-Shot Device Lifetimessim_frailty
Simulate One-Shot Device Testing Datasetssim_oneshot
Simulate One-Shot Device Lifetimes under Shared Gamma Frailtysim_oneshot_frailty
Simulate Dependent Component Lifetimes via Gamma Frailtysim_oneshot_frailty_lifetimes
Simulate Data from Zero-Inflated Promotion Cure-Rate Modelssim_ziprom
Summary Method for Bayesian Frailty Modelssummary.frailty_bayes
Summary Method for MLE Frailty Modelssummary.frailty_mle
Summary Method for One-Shot Frailty Model Fitssummary.oneshot_kofm
Proper Conditional Survival Function for Susceptible Groupsurv_proper
Likelihood Ratio Test for Baseline Lifetime Distributiontest_baseline
Likelihood Ratio Test for Component Independencetest_independence
Variance of Frailty Distributionvar_frailty
Extract Variance-Covariance Matrixvcov.oneshot_kofm
Population Density Functionziprom_core_dens
Population Survival Functionziprom_core_surv
Fit Zero-Inflated Promotion Cure-Rate Models with Frailtyziprom_fit
Log-Likelihood Function for Zero-Inflated Promotion Cure-Rate Modelsziprom_loglik