DESCRIPTION

Package: crmPack
Title: Object-Oriented Implementation of CRM Designs
Version: 2.0.0.9002
Authors@R: c(
    person("Daniel", "Sabanes Bove", , "daniel.sabanes_bove@rconis.com", role = c("aut", "cre")),
    person("Wai", "Yin Yeung", , "winnie.yeung@roche.com", role = "aut"),
    person("Burak Kuersad", "Guenhan", , "burakgunhan@gmail.com", role = "aut"),
    person("Giuseppe", "Palermo", , "giuseppe.palermo@roche.com", role = "aut"),
    person("Thomas", "Jaki", , "jaki.thomas@gmail.com", role = "aut"),
    person("Jiawen", "Zhu", , "zhu.jiawen@gene.com", role = "aut"),
    person("Ziwei", "Liao", , "ziwei.liao.fdu@gmail.com", role = "aut"),
    person("Dimitris", "Kontos", , "dimitris.kontos@bayer.com", role = "aut"),
    person("Marlene", "Schulte-Goebel", , "marlene.schulte-goebel@merckgroup.com", role = "aut"),
    person("Doug", "Kelkhoff", , "doug.kelkhoff@roche.com", role = "aut",
           comment = c(ORCID = "0009-0003-7845-4061")),
    person("Oliver", "Boix", , "oliver.boix@bayer.com", role = "aut"),
    person("Robert", "Adams", , "robert.adams@bayer.com", role = "aut"),
    person("Clara", "Beck", , "clara.beck@bayer.com", role = "aut"),
    person("John", "Kirkpatrick", , "john.kirkpatrick@roche.com", role = "aut"),
    person("F. Hoffmann-La Roche AG", role = c("cph", "fnd")),
    person("Merck Healthcare KGaA", role = c("cph", "fnd")),
    person("Bayer AG", role = c("cph", "fnd"))
  )
Description: Implements a wide range of model-based dose escalation
    designs, ranging from classical and modern continual reassessment
    methods (CRMs) based on dose-limiting toxicity endpoints to
    dual-endpoint designs taking into account a biomarker/efficacy
    outcome. The focus is on Bayesian inference, making it very easy to
    setup a new design with its own JAGS code. However, it is also
    possible to implement 3+3 designs for comparison or models with
    non-Bayesian estimation. The whole package is written in a modular
    form in the S4 class system, making it very flexible for adaptation to
    new models, escalation or stopping rules. Further details are
    presented in Sabanes Bove et al. (2019) <doi:10.18637/jss.v089.i10>.
License: GPL (>= 2)
URL: https://github.com/openpharma/crmPack,
    https://openpharma.github.io/crmPack/
BugReports: https://github.com/openpharma/crmPack/issues
Depends:
    ggplot2 (>= 2.0.0),
    graphics,
    R (>= 3.5.0)
Imports:
    checkmate (>= 2.2.0),
    dplyr,
    futile.logger,
    GenSA,
    gridExtra,
    kableExtra,
    knitr,
    lifecycle,
    magrittr,
    methods,
    mvtnorm,
    parallel,
    parallelly,
    rjags,
    rlang,
    survival,
    tibble,
    tidyselect (>= 1.2.0),
    tools,
    utils
Suggests:
    bookdown,
    broom,
    covr,
    data.tree,
    ggmcmc,
    quarto (>= 1.4),
    rmarkdown,
    stringr,
    testthat (>= 3.0.0),
    tidyr,
    vdiffr,
    withr
VignetteBuilder: 
    knitr,
    quarto
Config/testthat/edition: 3
Encoding: UTF-8
Language: en-US
LazyLoad: yes
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.1
Collate:
    'CrmPackClass-class.R'
    'CrmPackClass-methods.R'
    'Data-validity.R'
    'helpers.R'
    'Data-class.R'
    'helpers_data.R'
    'Data-methods.R'
    'Rules-validity.R'
    'Rules-class.R'
    'ModelParams-validity.R'
    'ModelParams-class.R'
    'Model-validity.R'
    'helpers_jags.R'
    'Model-class.R'
    'Design-validity.R'
    'Design-class.R'
    'McmcOptions-validity.R'
    'McmcOptions-class.R'
    'McmcOptions-methods.R'
    'Samples-validity.R'
    'Samples-class.R'
    'logger.R'
    'helpers_covr.R'
    'mcmc.R'
    'Simulations-validity.R'
    'Simulations-class.R'
    'helpers_broom.R'
    'helpers_rules.R'
    'Model-methods.R'
    'checkmate.R'
    'Rules-methods.R'
    'Design-methods.R'
    'fromQuantiles.R'
    'Samples-methods.R'
    'Simulations-methods.R'
    'crmPack-package.R'
    'helpers_design.R'
    'helpers_knitr.R'
    'helpers_knitr_CohortSize.R'
    'helpers_knitr_Design.R'
    'helpers_knitr_GeneralData.R'
    'helpers_knitr_GeneralModel.R'
    'helpers_knitr_Increments.R'
    'helpers_knitr_NextBest.R'
    'helpers_knitr_SafetyWindow.R'
    'helpers_knitr_Stopping.R'
    'helpers_model.R'
    'helpers_samples.R'
    'helpers_simulations.R'
    'utils-pipe.R'
    'utils.R'