plotRCDF.pooledArms {futility}

Plot Characteristics of the Estimated Distribution of the Treatment Arm-Pooled Number of Endpoints

Description

Takes the output from the completeTrial.pooledArms function and generates a plot describing characteristics of the estimated distribution of the treatment arm-pooled number of endpoints.

Usage

plotRCDF.pooledArms(eventTimeFrame = NULL, eventPPcohort = FALSE,
  target, power.axis = TRUE, power.TE = NULL, eventPriorRate,
  eventPriorWeight, xlim = NULL, xlab = NULL, ylab = NULL,
  power.lab = NULL, xPosLegend = 0.67, fileDir)

Arguments

eventTimeFrame

a time frame within which endpoints are counted, specified in weeks as c(start, end). If NULL (default), then all endpoints are counted.

eventPPcohort

a logical value. If TRUE, only endpoints in the per-protocol cohort are counted. The default value is FALSE.

target

a vector of target numbers of endpoints for reporting of the estimated probability that the total number of endpoints will be \ge target, with a 95% credible interval

power.axis

a logical value. If TRUE (default), then a top axis is added to the plot, showing power to reject H_0: TE \le 0% using a 1-sided 0.025-level Wald test if TE = power.TE throughout the trial.

power.TE

a numeric value of treatment efficacy for which power is shown on the top axis. If power.axis is FALSE, then power.TE is ignored.

eventPriorRate

a numeric value of the treatment arm-pooled prior mean incidence rate for the endpoint, expressed as the number of events per person-year at risk

eventPriorWeight

a numeric vector in which each value represents a weight (i.e., a separate scenario) assigned to the prior gamma distribution of the treatment arm-pooled event rate at the time when 50% of the estimated total person-time at risk has been accumulated

xlim

a numeric vector of the form c(xmin, xmax) for the user-specified x-axis limits. If NULL (default), then the computed range of x-axis values will be used.

xlab

a character string for the user-specified x-axis label. If NULL (default), then the label "Total Number of Infections (n)" will be used.

ylab

a character string for the user-specified y-axis label. If NULL (default), then the label "P( Total Number of Infections >= n ) x 100" will be used.

power.lab

a character string for the user-specified power-axis label. If NULL (default), then the label "Power for TE = power.TE (x 100)" will be used.

xPosLegend

a numeric value in [0,1] (0.67 by default) specifying the x-coordinate for the position of the legend

fileDir

a character string specifying a path for the input directory

Value

None. The function is called solely for plot generation.

See Also

completeTrial.pooledArms and plotRCDF.byArm

Examples

arm <- rep(c("C3","T1","T2"), each=250)
schedule <- rbinom(length(arm), 1, 0.01)
entry <- rpois(length(arm), lambda=60)
entry <- entry - min(entry)
last_visit_dt <- entry + runif(length(arm), min=0, max=80)
event <- rbinom(length(arm), 1, 0.01)
dropout <- rbinom(length(arm), 1, 0.02)
dropout[event==1] <- 0
exit <- rep(NA, length(arm))
exit[event==1] <- last_visit_dt[event==1] + 5
exit[dropout==1] <- last_visit_dt[dropout==1] + 5
followup <- ifelse(event==1 | dropout==1, 0, 1)
interimData <- data.frame(arm=arm, schedule2=schedule, entry=entry, exit=exit,
last_visit_dt=last_visit_dt, event=event, dropout=dropout, complete=0,
followup=followup)

weights <- c(0.2, 0.4, 0.6)
for (j in 1:length(weights)){
  completeTrial.pooledArms(interimData=interimData, nTrials=50, N=1500, enrollRatePeriod=24,
  eventPriorWeight=weights[j], eventPriorRate=0.06, fuTime=80, visitSchedule=seq(0, 80, by=4),
  visitSchedule2=c(0,seq(from=8,to=80,by=12)), saveDir="./", randomSeed=9)
}

pdf(file=paste0("./","rcdf_pooled_eventPriorRate=",0.06,".pdf"), width=6, height=5)
plotRCDF.pooledArms(target=c(60,30), power.axis=FALSE, eventPriorRate=0.06,
eventPriorWeight=weights, fileDir="./")
dev.off()