outputation: Create an outputted dataset for use with multiple...

In IrregLong: Analysis of Longitudinal Data with Irregular Observation Times

Create an outputted dataset for use with multiple outputation.

Description

Multiple outputation is a procedure whereby excess observations are repeatedly randomly sampled and discarded. The method was originally developed to handle clustered data where cluster size is informative, for example when studying pups in a litter. In this case, analysis that ignores cluster size results in larger litters being over-represented in a marginal analysis. Multiple outputation circumvents this problem by randomly selecting one observation per cluster. Multiple outputation has been further adapted to handle longitudinal data subject to irregular observation; here the probability of being retained on any given outputation is inversely proportional to the visit intensity. This function creates a single outputted dataset.

Usage

outputation(data, weights, singleobs, id, time, keep.first)

Arguments

data	the original dataset on which multiple outputation is to be performed
weights	the weights to be used in the outputation, i.e. the inverse of the probability that a given observation will be selected in creating an outputted dataset. Ignored if singleobs=TRUE
singleobs	logical variable indicating whether a single observation should be retained for each subject
id	character string indicating which column of the data identifies subjects
time	character string indicating which column of the data contains the time at which the visit occurred
keep.first	logical variable indicating whether the first observation should be retained with probability 1. This is useful if the data consists of an observation at baseline followed by follow-up at stochastic time points.

Value

the outputted dataset.

References

• Hoffman E, Sen P, Weinberg C. Within-cluster resampling. Biometrika 2001; 88:1121-1134

• Follmann D, Proschan M, Leifer E. Multiple outputation: inference for complex clustered data by averaging analyses from independent data. Biometrics 2003; 59:420-429

• Pullenayegum EM. Multiple outputation for the analysis of longitudinal data subject to irregular observation. Statistics in Medicine (in press).

See Also

Other mo: mo()

Examples

library(nlme)
data(Phenobarb)
library(survival)
library(geepack)
library(data.table)
Phenobarb$event <- 1-as.numeric(is.na(Phenobarb$conc))
data <- Phenobarb
data <- data[data$event==1,]
data$id <- as.numeric(data$Subject)
data <- data[data$time<16*24,]
i <- iiw.weights(Surv(time.lag,time,event)~I(conc.lag>0 & conc.lag<=20) +
I(conc.lag>20 & conc.lag<=30) + I(conc.lag>30)+ cluster(id),
id="id",time="time",event="event",data=data,
invariant="id",lagvars=c("time","conc"),maxfu=16*24,lagfirst=0,first=TRUE)
data$weight <- i$iiw.weight
head(data)
data.output1 <-   outputation(data,data$weight,singleobs=FALSE,
id="id",time="time",keep.first=FALSE)
head(data.output1)
data.output2 <-   outputation(data,data$weight,singleobs=FALSE,
id="id",time="time",keep.first=FALSE)
head(data.output2)
data.output3 <-   outputation(data,data$weight,singleobs=FALSE,
id="id",time="time",keep.first=FALSE)
head(data.output3)
# Note that the outputted dataset varies with each command run; outputation is done at random

IrregLong documentation built on March 18, 2022, 5:45 p.m.