seqDesign: Simulation and Group Sequential Monitoring of Randomized Two-Stage Treatment Efficacy Trials with Time-to-Event Endpoints

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A modification of the preventive vaccine efficacy trial design of Gilbert, Grove et al. (2011, Statistical Communications in Infectious Diseases) is implemented, with application generally to individual-randomized clinical trials with multiple active treatment groups and a shared control group, and a study endpoint that is a time-to-event endpoint subject to right-censoring. The design accounts for the issues that the efficacy of the treatment/vaccine groups may take time to accrue while the multiple treatment administrations/vaccinations are given; there is interest in assessing the durability of treatment efficacy over time; and group sequential monitoring of each treatment group for potential harm, non-efficacy/efficacy futility, and high efficacy is warranted. The design divides the trial into two stages of time periods, where each treatment is first evaluated for efficacy in the first stage of follow-up, and, if and only if it shows significant treatment efficacy in stage one, it is evaluated for longer-term durability of efficacy in stage two. The package produces plots and tables describing operating characteristics of a specified design including an unconditional power for intention-to-treat and per-protocol/as-treated analyses; trial duration; probabilities of the different possible trial monitoring outcomes (e.g., stopping early for non-efficacy); unconditional power for comparing treatment efficacies; and distributions of numbers of endpoint events occurring after the treatments/vaccinations are given, useful as input parameters for the design of studies of the association of biomarkers with a clinical outcome (surrogate endpoint problem). The code can be used for a single active treatment versus control design and for a single-stage design.

Author
Michal Juraska and Doug Grove, with contributions from Xuesong Yu and Peter B. Gilbert
Date of publication
2015-04-27 18:57:11
Maintainer
Michal Juraska <mjuraska@fhcrc.org>
License
GPL-2
Version
1.1

View on CRAN

Man pages

censTrial
Generation of Pre-Unblinded Follow-Up Data-Sets by Applying...
getBlockSize
Determine block size for use in blocked randomization
monitorTrial
Group Sequential Monitoring of Simulated Efficacy Trials for...
rankTrial
Ranking and Selection, and Head-to-Head Comparison of...
simTrial
Simulation of Multi-Arm Randomized Phase IIb/III Efficacy...
VEpowerPP
Unconditional Power to Detect Positive Treatment Efficacy in...

Files in this package

seqDesign
seqDesign/inst
seqDesign/inst/extdata
seqDesign/inst/extdata/seqDesignReportSample.Rnw
seqDesign/inst/extdata/seqDesignReportSample.pdf
seqDesign/inst/doc
seqDesign/inst/doc/seqDesignInstructions.pdf
seqDesign/inst/doc/seqDesignInstructions.Rnw
seqDesign/inst/doc/seqDesignInstructions.R
seqDesign/NAMESPACE
seqDesign/R
seqDesign/R/seqDesign.R
seqDesign/vignettes
seqDesign/vignettes/seqDesignInstructions.Rnw
seqDesign/MD5
seqDesign/build
seqDesign/build/vignette.rds
seqDesign/DESCRIPTION
seqDesign/man
seqDesign/man/simTrial.Rd
seqDesign/man/getBlockSize.Rd
seqDesign/man/VEpowerPP.Rd
seqDesign/man/monitorTrial.Rd
seqDesign/man/rankTrial.Rd
seqDesign/man/censTrial.Rd