powerSurvEpi (version 0.0.9)

ssizeEpiInt: Sample Size Calculation Testing Interaction Effect for Cox Proportional Hazards Regression

Description

Sample size calculation testing interaction effect for Cox proportional hazards regression with two covariates for Epidemiological Studies. Both covariates should be binary variables. The formula takes into account the correlation between the two covariates.

Usage

ssizeEpiInt(X1, X2, failureFlag, power, theta, alpha = 0.05)

Arguments

X1

a nPilot by 1 vector, where nPilot is the number of subjects in the pilot data set. This vector records the values of the covariate of interest for the nPilot subjects in the pilot study. X1 sh

X2

a nPilot by 1 vector, where nPilot is the number of subjects in the pilot study. This vector records the values of the second covariate for the nPilot subjects in the pilot study. X2 should

failureFlag

a nPilot by 1 vector of indicators indicating if a subject is failure (failureFlag=1) or alive (failureFlag=0).

power

postulated power.

theta

postulated hazard ratio.

alpha

type I error rate.

Value

• n
  the total number of subjects required.
• p
  estimated $Pr(X_1=1)$
• q
  estimated $Pr(X_2=1)$
• p0
  estimated $Pr(X_1=1 | X_2=0)$
• p1
  estimated $Pr(X_1=1 | X_2=1)$
• rho2
  square of the estimated $corr(X_1, X_2)$
• G
  a factor adjusting the sample size. The sample size needed to detect an effect of a prognostic factor with given error probabilities has to be multiplied by the factor G when an interaction of the same magnitude is to be detected.
• mya
  estimated number of subjects taking values $X_1=0$ and $X_2=0$.
• myb
  estimated number of subjects taking values $X_1=0$ and $X_2=1$.
• myc
  estimated number of subjects taking values $X_1=1$ and $X_2=0$.
• myd
  estimated number of subjects taking values $X_1=1$ and $X_2=1$.
• psi
  proportion of subjects died of the disease of interest.

Details

This is an implementation of the sample size calculation formula derived by Schmoor et al. (2000) for the following Cox proportional hazards regression in the epidemoilogical studies: $$h(t|x_1, x_2)=h_0(t)\exp(\beta_1 x_1+\beta_2 x_2 + \gamma (x_1 x_2)),$$ where both covariates $X_1$ and $X_2$ are binary variables.

Suppose we want to check if the hazard ratio of the interaction effect $X_1 X_2=1$ to $X_1 X_2=0$ is equal to $1$ or is equal to $\exp(\gamma)=\theta$. Given the type I error rate $\alpha$ for a two-sided test, the total number of subjects required to achieve the desired power $1-\beta$ is: $$n=\frac{\left(z_{1-\alpha/2}+z_{1-\beta}\right)^2 G}{ [\log(\theta)]^2 \psi (1-p) p (1-\rho^2) },$$ where $\psi$ is the proportion of subjects died of the disease of interest, and $$\rho=corr(X_1, X_2)=(p_1-p_0)\times\sqrt{\frac{q(1-q)}{p(1-p)}},$$ and $p=Pr(X_1=1)$, $q=Pr(X_2=1)$, $p_0=Pr(X_1=1|X_2=0)$, and $p_1=Pr(X_1=1 | X_2=1)$, and $$G=\frac{[(1-q)(1-p_0)p_0+q(1-p_1)p_1]^2}{(1-q)q (1-p_0)p_0 (1-p_1) p_1},$$ and $p0=Pr(X_1=1 | X_2=0)=myc/(mya+myc)$, $p1=Pr(X_1=1 | X_2=1)=myd/(myb+myd)$, $p=Pr(X_1=1)=(myc+myd)/n$, $q=Pr(X_2=1)=(myb+myd)/n$, $n=mya+myb+myc+myd$.

$p_{00}=Pr(X_1=0,\mbox{and}, X_2=0)$, $p_{01}=Pr(X_1=0,\mbox{and}, X_2=1)$, $p_{10}=Pr(X_1=1,\mbox{and}, X_2=0)$, $p_{11}=Pr(X_1=1,\mbox{and}, X_2=1)$.

$p_{00}$, $p_{01}$, $p_{10}$, $p_{11}$, and $\psi$ will be estimated from the pilot data.

References

Schmoor C., Sauerbrei W., and Schumacher M. (2000). Sample size considerations for the evaluation of prognostic factors in survival analysis. Statistics in Medicine. 19:441-452.

See Also

ssizeEpiInt.default0, ssizeEpiInt2

Examples

# generate a toy pilot data set
  X1 <- c(rep(1, 39), rep(0, 61))
  set.seed(123456)
  X2 <- sample(c(0, 1), 100, replace = TRUE)
  failureFlag <- sample(c(0, 1), 100, prob = c(0.25, 0.75), replace = TRUE)

  ssizeEpiInt(X1, X2, failureFlag, power = 0.88, theta = 3, alpha = 0.05)