Table 1.
Additional non-commercial software of potential interest to platform trial simulation. Description of most R packages was taken from https://cran.r-project.org/web/packages/. All URLs were checked last on 29.07.2020
| Name | Description | Platform |
|---|---|---|
| adaptTest | The functions defined in this program serve for implementing adaptive two-stage tests. Currently, four tests are included: Bauer and Koehne (1994), Lehmacher and Wassmer (1999), Vandemeulebroecke (2006), and the horizontal conditional error function. | R |
| AGSDest | Calculation of repeated confidence intervals as well as confidence intervals based on the stage-wise ordering in group sequential designs and adaptive group sequential designs. | R |
| basket | Package for the analysis of basket trials which implements binary, symmetric multi-source exchangeability models for Bayesian analyses of subgroups. Analyses can be conducted “basketwise” or “clusterwise”, where subgroups are combined into meta-baskets. | R |
| BayesianPickWinner | Calculation of power for the Bayesian pick-the-winner design. Accessible via https://github.com/dungtsa/BayesianPickWinner. | R |
| Bayesian Basket Discovery Trials | Design, Monitoring and Analysis. Accessible via https://brbnci.shinyapps.io/BasketTrials/ | R Shiny |
| BTcode | Basket trials with hierarchical Bayesian modeling. Accessible via: https://github.com/kristenmay206/BTcode | R |
| EVD | Simulation of various sequential two- and multi-arm clinical trial designs with Day-14 survival rate as primary endpoint. Accessible via https://github.com/mbrueckner/evd | R |
| gMCP | Functions and a graphical user interface for graphical described multiple test procedures. | R |
| interAdapt | A shiny application for designing adaptive clinical trials. For more details, see: http://arxiv.org/abs/1404.0734 | R Shiny |
| MD Anderson Software Download Kiosk | Several individual software for specific tasks, such as software to simulate clinical trials with response-adaptive randomization (no control, multiple experimental arms) and a tool to calculate confidence limits on the difference between two binomial proportions. Accessible via https://biostatistics.mdanderson.org/SoftwareDownload/. | Individual |
| multcomp | Simultaneous tests and confidence intervals for general linear hypotheses in parametric models, including linear, generalized linear, linear mixed effects, and survival models. | R |
| optGS | Near-optimal and balanced group-sequential designs for clinical trials with continuous outcomes | R |
| Optimal two-stage basket trials | Calculation of optimal design parameters for two-stage basket trials. Accessible via https://www.mskcc.org/departments/epidemiology-biostatistics/biostatistics/basket-trials. | R |
| RCTDesign | Evaluating, analyzing, and reporting group sequential and adaptive clinical trial designs. | R |
| Research code of Dr. James, Wason | Code in several programming languages implementing research of Dr. James Wason from the MRC Biostatistics Unit and co-authors. Accessible via https://sites.google.com/site/jmswason/supplementary-material | Several |
| Research code of Dr. Ying Yuan | R code and Windows programs implementing research of Dr. Ying Yuan from the MD Anderson Cancer Center. Accessible via https://odin.mdacc.tmc.edu/~yyuan/index_code.html | R and Individual |