{ "_id": "6a1024f8acfb0bcc41c8e78f", "Package": "hdbayes", "Title": "Bayesian Analysis of Generalized Linear Models with Historical\nData", "Version": "0.2.0", "Authors@R": "c(person(\"Ethan M.\", \"Alt\", email = \"ethanalt@live.unc.edu\", role = c(\"aut\", \"cre\", \"cph\"), comment = c(ORCID = \"0000-0002-6112-9030\")), \nperson(\"Xinxin\", \"Chen\", role = \"aut\"),\nperson(\"Luiz M.\", \"Carvalho\", role = \"aut\"),\nperson(\"Joseph G.\", \"Ibrahim\", role = \"aut\"),\nperson(\"Xiuya\", \"Chang\", role = \"ctb\")\n)", "Description": "User-friendly functions for leveraging (multiple)\nhistorical data set(s) in Bayesian analysis of generalized\nlinear models (GLMs) and survival models, along with support\nfor Bayesian model averaging (BMA). The package provides\nfunctions for sampling from posterior distributions under\nvarious informative priors, including the prior induced by the\nBayesian hierarchical model, power prior by Ibrahim and Chen\n(2000) , normalized power prior by\nDuan et al. (2006) , normalized asymptotic\npower prior by Ibrahim et al. (2015) ,\ncommensurate prior by Hobbs et al. (2011)\n, robust\nmeta-analytic-predictive prior by Schmidli et al. (2014)\n, latent exchangeability prior by Alt\net al. (2024) , and a normal (or\nhalf-normal) prior. The package also includes functions for\ncomputing model averaging weights, such as BMA, pseudo-BMA,\npseudo-BMA with the Bayesian bootstrap, and stacking (Yao et\nal., 2018 ), as well as for generating\nposterior samples from the ensemble distributions to reflect\nmodel uncertainty. In addition to GLMs, the package supports\nsurvival models including: (1) accelerated failure time (AFT)\nmodels, (2) piecewise exponential (PWE) models, i.e.,\nproportional hazards models with piecewise constant baseline\nhazards, and (3) mixture cure rate models that assume a common\nprobability of cure across subjects, paired with a PWE model\nfor the non-cured population. Functions for computing marginal\nlog-likelihoods under each implemented prior are also included.\nThe package compiles all the 'CmdStan' models once during\ninstallation using the 'instantiate' package.", "License": "MIT + file LICENSE", "URL": "https://github.com/ethan-alt/hdbayes", "BugReports": "https://github.com/ethan-alt/hdbayes/issues", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.2", "Additional_repositories": "https://mc-stan.org/r-packages/", "SystemRequirements": "CmdStan\n(https://mc-stan.org/users/interfaces/cmdstan)", "LazyData": "true", "Collate": "'E1684-data.R' 'E1690-data.R' 'E1694-data.R' 'E2696-data.R'\n'IBCSG_curr-data.R' 'IBCSG_hist-data.R' 'actg019-data.R'\n'actg036-data.R' 'data_checks_aft.R' 'get_stan_data_aft.R'\n'aft_bhm.R' 'aft_loglik.R' 'aft_bhm_lognc.R'\n'aft_commensurate.R' 'expfam_loglik.R' 'mixture_loglik.R'\n'aft_commensurate_lognc.R' 'aft_leap.R' 'mixture_aft_loglik.R'\n'aft_leap_lognc.R' 'aft_logml_commensurate.R'\n'aft_logml_leap.R' 'aft_logml_map.R' 'aft_logml_npp.R'\n'aft_logml_post.R' 'aft_pp_lognc.R' 'aft_logml_pp.R'\n'aft_stratified_pp_lognc.R' 'aft_logml_stratified_pp.R'\n'aft_npp_lognc.R' 'aft_npp.R' 'aft_post.R' 'aft_pp.R'\n'aft_stratified_pp.R' 'compute_ensemble_weights.R'\n'data_checks_pwe.R' 'get_stan_data_pwe.R' 'curepwe_bhm.R'\n'pwe_loglik.R' 'curepwe_bhm_lognc.R' 'curepwe_commensurate.R'\n'curepwe_commensurate_lognc.R' 'curepwe_leap.R'\n'curepwe_leap_lognc.R' 'curepwe_logml_commensurate.R'\n'curepwe_logml_leap.R' 'curepwe_logml_map.R'\n'curepwe_logml_npp.R' 'curepwe_logml_post.R'\n'curepwe_pp_lognc.R' 'curepwe_logml_pp.R'\n'curepwe_stratified_pp_lognc.R' 'curepwe_logml_stratified_pp.R'\n'curepwe_npp_lognc.R' 'curepwe_npp.R' 'curepwe_post.R'\n'curepwe_pp.R' 'curepwe_stratified_pp.R' 'data_checks.R'\n'get_stan_data.R' 'glm_bhm.R' 'glm_bhm_lognc.R'\n'glm_commensurate.R' 'glm_commensurate_lognc.R' 'glm_leap.R'\n'glm_leap_lognc.R' 'glm_logml_commensurate.R'\n'glm_logml_leap.R' 'glm_logml_map.R' 'glm_logml_napp.R'\n'glm_logml_npp.R' 'glm_logml_post.R' 'glm_pp_lognc.R'\n'glm_logml_pp.R' 'glm_napp.R' 'glm_npp_lognc.R' 'glm_npp.R'\n'glm_post.R' 'glm_pp.R' 'glm_rmap.R' 'hdbayes-package.R'\n'lm_npp.R' 'pwe_bhm.R' 'pwe_bhm_lognc.R' 'pwe_commensurate.R'\n'pwe_commensurate_lognc.R' 'pwe_leap.R' 'pwe_leap_lognc.R'\n'pwe_logml_commensurate.R' 'pwe_logml_leap.R' 'pwe_logml_map.R'\n'pwe_logml_npp.R' 'pwe_logml_post.R' 'pwe_pp_lognc.R'\n'pwe_logml_pp.R' 'pwe_stratified_pp_lognc.R'\n'pwe_logml_stratified_pp.R' 'pwe_npp_lognc.R' 'pwe_npp.R'\n'pwe_post.R' 'pwe_pp.R' 'pwe_stratified_pp.R'\n'sample_ensemble.R' 'zzz.R'", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev", "Repository": "https://ethan-alt.r-universe.dev", "Date/Publication": "2025-11-14 12:50:01 UTC", "RemoteUrl": "https://github.com/ethan-alt/hdbayes", "RemoteRef": "HEAD", "RemoteSha": "c2454d671eb6b9c44c854312687933e61e8fc6dd", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-13 09:31:16 UTC", "User": "root" }, "Author": "Ethan M. Alt [aut, cre, cph] (ORCID:\n),\nXinxin Chen [aut],\nLuiz M. Carvalho [aut],\nJoseph G. Ibrahim [aut],\nXiuya Chang [ctb]", "Maintainer": "Ethan M. 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