CIFsm {CIFsmry} R Documentation

## Cumulative incidence function estimate and weighted summary statistics

### Description

Estimate the cumulative incidence function for cause of interest in two-sample study. Provide the weighted summary statistics based on given method and weight.

### Usage

```CIFsm(ds,method="dif",pp = 0,qq = 0,conf.bd=T,n.sim=500)
```

### Arguments

 `ds` `ds` is a dataset contains the time, cause of event and group. For cause, 0 means censoring, 1 is the cause of event, 2 is all other causes. Two groups need to be coded as 1 and 2. `method` `method` can be chosen from "dif"=risk difference, "rr"=risk ratio and "or"=odds ratio `pp` first parameter of weight function `qq` second parameter of weight function `conf.bd` logical; if TRUE, create confidence band cut point. Set to FALSE if the confidence band is not needed, which reduces the computational time `n.sim` number of simulations used in creating confidence band; will be ineffective if `conf.bd` is FALSE

### Details

The estimates and summary statistics are described in Zhang and Fine (2008).

### Value

 `sample` Total sample size from both groups `used` Sample used in analysis. Subject with missing value in any of the three variables (time, cause or group) will be excluded from analysis `size` Sample size for each group `njp` Total number of unique event time points in two groups `tjp` Unique event time points from both groups `ny1` Number of subject at risk in group 1 `f1` Estimate of cumulative incidence function for group 1 `f1.se` Standard error of cumulative incidence function for group 1 `ny2` Number of subject at risk in group 2 `f2` Estimate of cumulative incidence function for group 2 `f2.se` Standard error of cumulative incidence function for group 2 `dif` Estimate of difference in cumulative incidence (risk difference) between the 2 groups `dif.se` Standard error of the risk difference `dif.pv` P-value of the risk difference `rr` Risk ratio of the cumulative incidence between the 2 groups `rr.se` Standard error of the risk ratio `rr.pv` P-value of the risk ratio `or` Odds ratio of the cumulative incidence between the 2 groups `or.se` Standard error of the odds ratio `or.pv` P-value of the odds ratio `cbcut` 95% confidence band cut point of risk difference, risk ratio and odds ratio based on simulation method. `method` Method used for the weighted summary statistics `weight` Weight used for the weighted summary statistics `region` Time range of the data `nbd` Index of beginning and end of the data. For internal use only `ave` Time integrated weighted summary statistics `avese` Standard error of the time integrated weighted summary statistics `ci95` 95% confidence interval of the time integrated weighted summary statistics `avepval` P-value of the time integrated weighted summary statistics `wt` Weight assigned at each unique event time point

Jianing Li

### References

M.J. Zhang and J.P. Fine. Summarizing difference in cumulative incidence functions. Statistics in Medicine, 27:4939-4949, 2008.

J. Li, M.J. Zhang and J. Le-Rademacher. Weighted Summary of two Cumulative Incidence Functions with R-CIFsmry Package. Computer Methods and Programs in Biomedicine[Submitted].

### Examples

```library(CIFsmry)
data(sim.dat)
out <- CIFsm(sim.dat,pp=0,qq=0)
out\$avepval
plot(out\$tjp,out\$f1,type="s",ylim=c(0,1),yaxt="n",xaxt="n",xlab="Time",ylab="CIF",
lty=1,lwd=1)
points(out\$tjp,out\$f2,type="s",lty=1,lwd=3)
axis(1,at=seq(0,6,by=1),cex=0.6)
axis(2,at=seq(0,1,by=0.2),cex=0.6)
legend("bottomright",c("1","2"),title="group",lty=1,lwd=c(1,3))

out10 <- CIFsm(sim.dat,pp=1,qq=0)
out10\$avepval
```

[Package CIFsmry version 1.0.1.1 Index]