AIM (version 1.01)

cox.main: Main effect Cox adaptive index model

Description

Estimate adpative index model for survival outcomes in the context of Cox regression. The resulting index characterizes the main covariate effect on the hazard.

Usage

cox.main(x, y, delta, nsteps=8,  mincut=.1, backfit=F, maxnumcut=1, dirp=0)

Arguments

x

n by p matrix. The covariate matrix

y

n vector. The observed follow-up time

delta

n 0/1 vector. The status indicator. 1=failure and 0=alive.

nsteps

the maximum number of binary rules to be included in the index

mincut

the minimum cutting proportion for the binary rule at either end. It typically is between 0 and 0.2.

backfit

T/F. Whether the existing split points are adjusted after including a new binary rule

maxnumcut

the maximum number of binary splits per predictor

dirp

p vector. The given direction of the binary split for each of the p predictors. 0 represents "no pre-given direction"; 1 represents "(x>cut)"; -1 represents "(x

Value

cox.main returns maxsc, which is the partial likelihood score test statistics in the fitted model and res, which is a list with components

jmaa

number of predictors

cutp

split points for the binary rules

maxdir

direction of split: 1 represents "(x>cut)" and -1 represents "(x

maxsc

observed partial likelihood score test statistics for the main effect

Details

cox.main sequentially estimates a sequence of adaptive index models with up to "nsteps" terms for survival outcomes. The appropriate number of binary rules can be selected via K-fold cross-validation (cv.cox.main).

References

Lu Tian and Robert Tibshirani (2010) "Adaptive index models for marker-based risk stratification", Tech Report, available at http://www-stat.stanford.edu/~tibs/AIM.

Examples

## generate data
set.seed(1)

n=200
p=10
x=matrix(rnorm(n*p), n, p)
z=(x[,1]<0.2)+(x[,5]>0.2)
beta=1
fail.time=rexp(n)*exp(-beta*z)
cen.time=rexp(n)*1.25
y=pmin(fail.time, cen.time)
y=round(y*10)/10
delta=1*(fail.time<cen.time)


## fit the main effect Cox AIM model 
a=cox.main(x, y, delta, nsteps=10)
 
## examine the model sequence 
print(a)


## compute the index based on the 2nd model of the sequence using data x 
z.prd=index.prediction(a$res[[2]],x)

## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
nn=10
xx=matrix(rnorm(nn*p), nn, p)
zz=(xx[,1]<0.2)+(xx[,5]>0.2)
zz.prd=index.prediction(a$res[[2]],xx) 
cbind(zz, zz.prd)