Package: frailtypack
Title: Shared, Joint (Generalized) Frailty Models; Surrogate Endpoints
Version: 3.8.1
Date: 2026-08-24
Authors@R: c(
    person("Virginie", "Rondeau", , "virginie.rondeau@u-bordeaux.fr", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0001-7109-4831")),
    person("Juan R.", "Gonzalez", role = "aut"),
    person("Yassin", "Mazroui", role = "aut"),
    person("Audrey", "Mauguen", role = "aut"),
    person("Amadou", "Diakite", role = "aut"),
    person("Alexandre", "Laurent", role = "aut"),
    person("Myriam", "Lopez", role = "aut"),
    person("Agnieszka", "Krol", role = "aut"),
    person("Casimir L.", "Sofeu", role = "aut"),
    person("Julien", "Dumerc", role = "aut"),
    person("Denis", "Rustand", role = "aut"),
    person("Jocelyn", "Chauvet", role = "aut"),
    person("Quentin", "Le Coent", role = "aut"),
    person("Romain", "Pierlot", role = "aut"),
    person("Lacey", "Etzkorn", role = "aut"),
    person("Derek", "Dinart", role = "aut"),
    person("Adrien", "Orué", role = "aut"),
    person("Ayoub", "Bifenzi", role = "aut"),
    person("Viviane", "Philipps", role = "aut"),
    person("David", "Hill", role = "cph"),
    person("John", "Burkardt", role = "cph"),
    person("Alan", "Genz", role = "cph"),
    person("Ashwith J.", "Rego", role = "cph")
  )
Author: Virginie Rondeau [aut, cre] (ORCID:
        <https://orcid.org/0000-0001-7109-4831>), Juan R. Gonzalez
        [aut], Yassin Mazroui [aut], Audrey Mauguen [aut], Amadou
        Diakite [aut], Alexandre Laurent [aut], Myriam Lopez [aut],
        Agnieszka Krol [aut], Casimir L. Sofeu [aut], Julien Dumerc
        [aut], Denis Rustand [aut], Jocelyn Chauvet [aut], Quentin Le
        Coent [aut], Romain Pierlot [aut], Lacey Etzkorn [aut], Derek
        Dinart [aut], Adrien Orué [aut], Ayoub Bifenzi [aut], Viviane
        Philipps [aut], David Hill [cph], John Burkardt [cph], Alan
        Genz [cph], Ashwith J. Rego [cph]
Maintainer: Virginie Rondeau <virginie.rondeau@u-bordeaux.fr>
Description: The following several classes of frailty models using a
        penalized likelihood estimation on the hazard function but also
        a parametric estimation can be fit using this R package: 1) A
        shared frailty model (with gamma or log-normal frailty
        distribution) and Cox proportional hazard model. Clustered and
        recurrent survival times can be studied.  2) Additive frailty
        models for proportional hazard models with two correlated
        random effects (intercept random effect with random slope).  3)
        Nested frailty models for hierarchically clustered data (with 2
        levels of clustering) by including two iid gamma random
        effects.  4) Joint frailty models in the context of the joint
        modelling for recurrent events with terminal event for
        clustered data or not. A joint frailty model for two
        semi-competing risks and clustered data is also proposed.  5)
        Joint general frailty models in the context of the joint
        modelling for recurrent events with terminal event data with
        two independent frailty terms.  6) Joint Nested frailty models
        in the context of the joint modelling for recurrent events with
        terminal event, for hierarchically clustered data (with two
        levels of clustering) by including two iid gamma random
        effects. 7) Multivariate joint frailty models for two types of
        recurrent events and a terminal event.  8) Joint models for
        longitudinal data and a terminal event.  9) Trivariate joint
        models for longitudinal data, recurrent events and a terminal
        event.  10) Joint frailty models for the validation of
        surrogate endpoints in multiple randomized clinical trials with
        failure-time and/or longitudinal endpoints with the possibility
        to use a mediation analysis model.  11) Conditional and
        Marginal two-part joint models for longitudinal semicontinuous
        data and a terminal event.  12) Joint frailty-copula models for
        the validation of surrogate endpoints in multiple randomized
        clinical trials with failure-time endpoints.  13) Generalized
        shared and joint frailty models for recurrent and terminal
        events. Proportional hazards (PH), additive hazard (AH),
        proportional odds (PO) and probit models are available in a
        fully parametric framework. For PH and AH models, it is
        possible to consider type-varying coefficients and flexible
        semiparametric hazard function.  Prediction values are
        available (for a terminal event or for a new recurrent event).
        Left-truncated (not for Joint model), right-censored data,
        interval-censored data (only for Cox proportional hazard and
        shared frailty model) and strata are allowed. In each model,
        the random effects have the gamma or normal distribution. Now,
        you can also consider time-varying covariates effects in Cox,
        shared and joint frailty models (1-5). The package includes
        concordance measures for Cox proportional hazards models and
        for shared frailty models.  14) Competing Joint Frailty Model:
        A single type of recurrent event and two terminal events.  15)
        functions to compute power and sample size for four
        Gamma-frailty-based designs: Shared Frailty Models, Nested
        Frailty Models, Joint Frailty Models, and General Joint Frailty
        Models. Each design includes two primary functions: a power
        function, which computes power given a specified sample size;
        and a sample size function, which computes the required sample
        size to achieve a specified power. 16) Weibull Illness-Death
        model with or without shared frailty between transitions.
        Left-truncated and right-censored data are allowed. 17) Weibull
        Competing risks model with or without shared frailty between
        the transitions. Left-truncated and right-censored data are
        allowed. Moreover, the package can be used with its shiny
        application, in a local mode or by following the link below.
License: GPL (>= 2.0)
URL:
        https://virginie1rondeau.wixsite.com/virginierondeau/software-frailtypack
        https://frailtypack-pkg.shinyapps.io/shiny_frailtypack/
Depends: boot, doBy, MASS, R (>= 3.5.0), survC1, survival
Imports: graphics, matrixcalc, nlme, rootSolve, shiny, splines,
        statmod, stats, utils, dplyr, marqLevAlg, tidyr,
Suggests: knitr, timereg, rmarkdown
VignetteBuilder: knitr
Encoding: UTF-8
LazyLoad: no
NeedsCompilation: yes
Packaged: 2026-09-24 10:09:12 UTC; root
Config/roxygen2/version: 8.1.0
Repository: https://cran.r-universe.dev
Date/Publication: 2026-08-25 11:10:10 UTC
RemoteUrl: https://github.com/cran/frailtypack
RemoteRef: HEAD
RemoteSha: 726fcf45f780c72e15d6460945337ee96ef6d1be
