Man pages for olssol/cava
Clinical Trial Design for Cancer Vaccines
| baBatches | Get batch sizes to get the total n |
| baBatInd | Get batch indices |
| bacBatchFreq | PDF of single batch |
| bacCumProb | Prepare probabilities |
| bacICC | Get InterClass Correlation |
| bacProb | Probability of (n = n, r = 0:n) |
| bacSimonDesign | Simon's two-stage design |
| bacSimonSingle | Single Simon 2-stage |
| baDesignBetaBin | Get designs for BetaBinomial designs |
| baDesignSens | Evaluate design sensitivity |
| baDesignSensSingle | Evaluate design sensitivity |
| baElicitFitMix | Fit mixed effect model to evaluate batch effect |
| baElicitICC | Elicit ICC based on batch effect and random error standard... |
| baGetBvrCvIcc | Get CV, batch effect variance ratio and ICC |
| baGetCuts | Get cut off of the outcome to get given response rates |
| baGetOutcome | Define outcome based on longitudinal outcomes |
| baGetRejRate | Get type I error and power given y0, y1, n1, r1, n, r |
| baPltAllTcell | Plot histogram of t-cells Y0 Y1 and Y1/Y0 for all scenarios |
| baPltTcell | Plot histogram of t-cells Y0 Y1 and Y1/Y0 for a given... |
| baRNB | Simulate NB using mu and phi instead of n and phi |
| baSaAlphaBeta | Get actuarial type I and II error in Sargent method |
| baSaDesign | Get Design type I and II error using Sargent method |
| baSaGetVar | Get variance given batch sizes, response rate and ICC |
| baSimuBatchError | Simulate errors for all batches |
| baSimuBetaBin | Simulate batch data from Beta-Binomial |
| baSimuError | Simulate random error |
| baSimuTcell | Simulate t-cell counts using Negative binomial |
| cava-package | Cancer Vaccine Clinical Trial Design |
| cvShiny | Run Web-Based 'cava' application |
| ex_data | Example dataset |
| parameters | Parameters |
| plot.VTDEC | Plot decision map |
| plot.VTTRUEPS | Plot true parameters |
| summary2 | S3 Summary function |
| summary2.VTSIMU | Summarize simulation results |
| summary2.VTTRUEPS | Print true probabilities in latex format |
| summary.VTSIMU | Summarize simulation results |
| summary.VTTRUEPS | Print true probabilities |
| tkCallFun | Call function by its name organized as a vector |
| tkExpRst | Export results into a template file |
| tkMakeLocal | Import objects in a list into a designated environment |
| vtDecMap | Obtain decision map information |
| vtInterim | Conduct interim analysis |
| vtPost | Postetrior sampling for given observed samples |
| vtPriorPar | Get prior distribution parameters |
| vtScenario | Set simulation scenario |
| vtSimu | Conduct simulation study |
| vtSingleTrial | Simulate a single trial |
| vtStan | Call STAN models for MCMC sampling |
| vtTrack | Plot the track plot of dose escalation |
