Obtains the power for equivalence in negative binomial rate ratio.
nbpowerequiv(
kMax = 1L,
informationRates = NA_real_,
criticalValues = NA_real_,
alpha = 0.05,
typeAlphaSpending = "sfOF",
parameterAlphaSpending = NA_real_,
userAlphaSpending = NA_real_,
rateRatioLower = NA_real_,
rateRatioUpper = NA_real_,
allocationRatioPlanned = 1,
accrualTime = 0L,
accrualIntensity = NA_real_,
piecewiseSurvivalTime = 0L,
stratumFraction = 1L,
kappa1 = NA_real_,
kappa2 = NA_real_,
lambda1 = NA_real_,
lambda2 = NA_real_,
gamma1 = 0L,
gamma2 = 0L,
accrualDuration = NA_real_,
followupTime = NA_real_,
fixedFollowup = 0L,
spendingTime = NA_real_,
studyDuration = NA_real_
)An S3 class nbpowerequiv object with 4 components:
overallResults: A data frame containing the following variables:
overallReject: The overall rejection probability.
alpha: The overall significance level.
numberOfEvents: The total number of events.
numbeOfSubjects: The total number of subjects.
exposure: The total exposure.
studyDuration: The total study duration.
information: The maximum information.
expectedNumberOfEvents: The expected number of events.
expectedNumberOfSubjects: The expected number of subjects.
expectedExposure: The expected exposure.
expectedStudyDuration: The expected study duration.
expectedInformation: The expected information.
kMax: The number of stages.
rateRatioLower: The lower equivalence limit of rate ratio.
rateRatioUpper: The upper equivalence limit of rate ratio.
rateRatio: The rate ratio.
accrualDuration: The accrual duration.
followupTime: The follow-up duration.
fixedFollowup: Whether a fixed follow-up design is used.
byStageResults: A data frame containing the following variables:
informationRates: The information rates.
efficacyBounds: The efficacy boundaries on the Z-scale for
each of the two one-sided tests.
rejectPerStage: The probability for efficacy stopping.
cumulativeRejection: The cumulative probability for efficacy
stopping.
cumulativeAlphaSpent: The cumulative alpha for each of
the two one-sided tests.
cumulativeAttainedAlphaH10: The cumulative alpha attained
under H10.
cumulativeAttainedAlphaH20: The cumulative alpha attained
under H20.
numberOfEvents: The number of events.
numberOfDropouts: The number of dropouts.
numberOfSubjects: The number of subjects.
exposure: The exposure.
analysisTime: The average time since trial start.
efficacyRateRatioLower: The efficacy boundaries on the
rate ratio scale for the one-sided null hypothesis at the
lower equivalence limit.
efficacyRateRatioUpper: The efficacy boundaries on the
rate ratio scale for the one-sided null hypothesis at the
upper equivalence limit.
efficacyP: The efficacy bounds on the p-value scale for
each of the two one-sided tests.
information: The cumulative information.
settings: A list containing the following input parameters:
typeAlphaSpending, parameterAlphaSpending,
userAlphaSpending, allocationRatioPlanned,
accrualTime, accuralIntensity,
piecewiseSurvivalTime, stratumFraction,
kappa1, kappa2,
lambda1, lambda2, gamma1, gamma2,
spendingTime.
byTreatmentCounts: A list containing the following counts by
treatment group:
numberOfEvents1: The number of events by stage for
the treatment group.
numberOfDropouts1: The number of dropouts by stage for
the treatment group.
numberOfSubjects1: The number of subjects by stage for
the treatment group.
exposure1: The exposure by stage for the treatment group.
numberOfEvents2: The number of events by stage for
the control group.
numberOfDropouts2: The number of dropouts by stage for
the control group.
numberOfSubjects2: The number of subjects by stage for
the control group.
exposure2: The exposure by stage for the control group.
expectedNumberOfEvents1: The expected number of events for
the treatment group.
expectedNumberOfDropouts1: The expected number of dropouts
for the treatment group.
expectedNumberOfSubjects1: The expected number of subjects
for the treatment group.
expectedExposure1: The expected exposure for the treatment
group.
expectedNumberOfEvents2: The expected number of events for
control group.
expectedNumberOfDropouts2: The expected number of dropouts
for the control group.
expectedNumberOfSubjects2: The expected number of subjects
for the control group.
expectedExposure2: The expected exposure for the control
group.
The maximum number of stages.
The information rates.
Defaults to (1:kMax) / kMax if left unspecified.
Upper boundaries on the z-test statistic scale for stopping for efficacy.
The significance level for each of the two one-sided tests. Defaults to 0.05.
The type of alpha spending. One of the following: "OF" for O'Brien-Fleming boundaries, "P" for Pocock boundaries, "WT" for Wang & Tsiatis boundaries, "sfOF" for O'Brien-Fleming type spending function, "sfP" for Pocock type spending function, "sfKD" for Kim & DeMets spending function, "sfHSD" for Hwang, Shi & DeCani spending function, "user" for user defined spending, and "none" for no early efficacy stopping. Defaults to "sfOF".
The parameter value for the alpha spending. Corresponds to Delta for "WT", rho for "sfKD", and gamma for "sfHSD".
The user defined alpha spending. Cumulative alpha spent up to each stage.
The lower equivalence limit of rate ratio.
The upper equivalence limit of rate ratio.
Allocation ratio for the active treatment versus control. Defaults to 1 for equal randomization.
A vector that specifies the starting time of
piecewise Poisson enrollment time intervals. Must start with 0, e.g.,
c(0, 3) breaks the time axis into 2 accrual intervals:
[0, 3) and [3, Inf).
A vector of accrual intensities. One for each accrual time interval.
A vector that specifies the starting time of
piecewise exponential survival time intervals. Must start with 0, e.g.,
c(0, 6) breaks the time axis into 2 event intervals:
[0, 6) and [6, Inf).
Defaults to 0 for exponential distribution.
A vector of stratum fractions that sum to 1. Defaults to 1 for no stratification.
The dispersion parameter (reciprocal of the shape parameter of the gamma mixing distribution) for the active treatment group by stratum.
The dispersion parameter (reciprocal of the shape parameter of the gamma mixing distribution) for the control group by stratum.
The rate parameter of the negative binomial distribution for the active treatment group by stratum.
The rate parameter of the negative binomial distribution for the control group by stratum.
The hazard rate for exponential dropout, a vector of hazard rates for piecewise exponential dropout applicable for all strata, or a vector of hazard rates for dropout in each analysis time interval by stratum for the active treatment group.
The hazard rate for exponential dropout, a vector of hazard rates for piecewise exponential dropout applicable for all strata, or a vector of hazard rates for dropout in each analysis time interval by stratum for the control group.
Duration of the enrollment period.
Follow-up time for the last enrolled subject.
Whether a fixed follow-up design is used. Defaults to 0 for variable follow-up.
A vector of length kMax for the error spending
time at each analysis. Defaults to missing, in which case, it is the
same as informationRates.
Study duration for fixed follow-up design.
Defaults to missing, which is to be replaced with the sum of
accrualDuration and followupTime. If provided,
the value is allowed to be less than the sum of accrualDuration
and followupTime.
Kaifeng Lu, kaifenglu@gmail.com
nbstat
# Example 1: Variable follow-up design
nbpowerequiv(kMax = 2, informationRates = c(0.5, 1),
alpha = 0.05, typeAlphaSpending = "sfOF",
rateRatioLower = 2/3, rateRatioUpper = 3/2,
accrualIntensity = 1956/1.25,
kappa1 = 5, kappa2 = 5,
lambda1 = 0.125, lambda2 = 0.125,
gamma1 = 0, gamma2 = 0,
accrualDuration = 1.25,
followupTime = 2.75, fixedFollowup = FALSE)
# Example 2: Fixed follow-up design
nbpowerequiv(kMax = 2, informationRates = c(0.5, 1),
alpha = 0.05, typeAlphaSpending = "sfOF",
rateRatioLower = 0.5, rateRatioUpper = 2,
accrualIntensity = 220/1.5,
stratumFraction = c(0.2, 0.8),
kappa1 = 3, kappa2 = 3,
lambda1 = c(8.4, 10.2),
lambda2 = c(8.0, 11.5),
gamma1 = 0, gamma2 = 0,
accrualDuration = 1.5,
followupTime = 0.5, fixedFollowup = TRUE)
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