Package: historicalborrow 1.1.0

William Michael Landau

historicalborrow: Non-Longitudinal Bayesian Historical Borrowing Models

Historical borrowing in clinical trials can improve precision and operating characteristics. This package supports a hierarchical model and a mixture model to borrow historical control data from other studies to better characterize the control response of the current study. It also quantifies the amount of borrowing through benchmark models (independent and pooled). Some of the methods are discussed by Viele et al. (2013) <doi:10.1002/pst.1589>.

Authors:William Michael Landau [aut, cre], Albert Man [rev], Eli Lilly and Company [cph]

historicalborrow_1.1.0.tar.gz
historicalborrow_1.1.0.tar.gz(r-4.5-noble)historicalborrow_1.1.0.tar.gz(r-4.4-noble)
historicalborrow_1.1.0.tgz(r-4.4-emscripten)historicalborrow_1.1.0.tgz(r-4.3-emscripten)
historicalborrow.pdf |historicalborrow.html✨
historicalborrow/json (API)

# Install 'historicalborrow' in R:

install.packages('historicalborrow', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/wlandau/historicalborrow/issues

Uses libs:

jags– Just Another Gibbs Sampler for Bayesian MCMC
c++– GNU Standard C++ Library v3

3.00 score 5 scripts 641 downloads 18 exports 46 dependencies

Last updated 2 months agofrom:a5b2315d34. Checks:OK: 2. Indexed: no.

Target	Result	Date
Doc / Vignettes	OK	Oct 11 2024
R-4.5-linux	OK	Oct 11 2024

Exports:hb_convergence hb_data hb_ess hb_mcmc_hierarchical hb_mcmc_independent hb_mcmc_mixture hb_mcmc_mixture_hyperparameters hb_mcmc_pool hb_metrics hb_plot_borrow hb_plot_group hb_plot_tau hb_s_tau hb_sim_hierarchical hb_sim_independent hb_sim_mixture hb_sim_pool hb_summary

Dependencies:abind backports checkmate cli coda colorspace cpp11 distributional dplyr fansi farver generics ggplot2 glue gtable isoband labeling lattice lifecycle magrittr MASS Matrix matrixStats mgcv munsell nlme numDeriv pillar pkgconfig posterior purrr R6 RColorBrewer rjags rlang scales stringi stringr tensorA tibble tidyr tidyselect utf8 vctrs viridisLite withr

Methods

Rendered frommethods.Rmdusingknitr::rmarkdownon Oct 11 2024.

Last update: 2024-09-11
Started: 2022-09-13

Usage

Rendered fromusage.Rmdusingknitr::rmarkdownon Oct 11 2024.

Last update: 2024-09-11
Started: 2022-09-13

Citation

Readme and manuals

Help Manual

Help page	Topics
historicalborrow: Bayesian historical borrowing models for clinical studies.	historicalborrow-package
Check convergence diagnostics	hb_convergence
Standardize data	hb_data
Effective sample size (ESS)	hb_ess
Hierarchical model MCMC	hb_mcmc_hierarchical
Independent-study model MCMC	hb_mcmc_independent
Mixture model MCMC	hb_mcmc_mixture
Mixture model MCMC hyperparameters	hb_mcmc_mixture_hyperparameters
Non-longitudinal pooled MCMC	hb_mcmc_pool
Plot a borrowing model response against the benchmark models.	hb_plot_borrow
Plot the groups of a borrowing model and its benchmark models.	hb_plot_group
Plot tau	hb_plot_tau
Non-longitudinal hierarchical simulations.	hb_sim_hierarchical
Non-longitudinal independent simulations.	hb_sim_independent
Non-longitudinal mixture simulations.	hb_sim_mixture
Non-longitudinal pooled simulations.	hb_sim_pool
Model summary	hb_summary