boot.CSD: Bootstrap estimation for the parameters.

In CRFCSD: Mixture Cure Generalized Odds Ratio Frailty Models for Clustered Current Status Data

Description

For the purpose of the confidence band calculation, here we estimate the parametric and nonparametric components of the model- mixed cure GOR model based on the bootstrap resampling.

Usage

  boot.CSD(Rawdata,n_subject.raw,n_within.raw,r,boot.rep,seed.begin,
                  n_quad=30,lambda=0,Cauchy.pen=TRUE,tolerance=1e-2,
                  knots.num=2,degree=2,scale.numr=TRUE,cure.reg=TRUE,clustering=TRUE)

Arguments

Rawdata	This is a dataframe of the current status data. The first column should be the index of the subject (cluster). The second column is the inspection time. The next n_subjec.raw columns are the subject (cluster-specifie) level covariates. Then the next n_within.raw columns are the within subject covariates. The last column is the indicator of the event where 1 or 0 indicate if the event has or has not happened by the inspection time, respectively. All the covariates are assumed to be either numerical or binary, and our program automatically detects if a covariate is a binary or numerical variable.
n_subject.raw	The number of subject (cluster-specifie) level covariates.
n_within.raw	The number of within cluster covariates.
r	The index of the Generalized odds ratio (GOR) model. This index is a non-negative number and it must be specified by the user. Here r=0 and 1 imply the proportional hazard and the proportional odds model, respectively.
boot.rep	The replications for the bootstrap (the number of bootstrap samples).
seed.begin	The random seed to start the bootstrap sampling. If the user wants to use parallel computation, just set different seed.begin for each nodes, then combine the results.
n_quad	The number of Gauss-Hermite quadrature nodes used in numerical integration. The default value is 30.
lambda	The tuning parameter of the roughness penalty used for estimating the non-parametric component of the GOR model. The default value is 0. One must use the roughness penalty when the number of basis functions in the non-parametric component of the GOR model is large.
Cauchy.pen	logical. If TRUE, then we use Cauchy penalty on the regression parameters to reduce the samll sample bias. The default is TRUE.
tolerance	This denotes the summation of the absolute values of the relative tolerance of all parameters in the model. It is used to define the convergence of the parameter estimates. The default value is 0.01.
knots.num	The number of equidistant interior knots for the integrated B-spline approximation of the nonparametric component of the GOR model. The default value is 2.
degree	The degree of integrated B-splines. The default value is 2.
scale.numr	logical. If TRUE, then all numeric covariates (cluster specifie and within cluster) are scaled with mean zero and standard deviation one. The default value is TRUE.
cure.reg	logical. TRUE and FALSE indicate modelling the cure rate part with covariates (including cluster and within cluster covariates) or not, respectively. The default value is TRUE.
clustering	logical. TRUE and FALSE indicate assume there is clustering effect or not, respectively. The default value is TRUE.

Value

boot.CSD returns a dataframe, each row contains one parameter estimate based on one bootstrap sample.

Examples

data(PD)
boot.result=boot.CSD(PD,3,1,0,3,10,n_quad=5)

CRFCSD documentation built on Dec. 19, 2019, 5:06 p.m.