lclGWAS: Efficient Estimation of Discrete-Time Multivariate Frailty Model Using Exact Likelihood Function for Grouped Survival Data

The core of this 'Rcpp' based package is several functions to estimate the baseline hazard, frailty variance, and fixed effect parameter for a discrete-time shared frailty model with random effects. The functions are designed to analyze grouped time-to-event data accounting for family structure of related individuals (i.e., trios). The core functions include two processes: (1) evaluate the multivariable integration to compute the exact proportional hazards model based likelihood and (2) estimate the desired parameters using maximum likelihood estimation. The integration is evaluated by the 'Cuhre' algorithm from the 'Cuba' library (Hahn, T., Cuba-a library for multidimensional numerical integration, Comput. Phys. Commun. 168, 2005, 78-95 <doi:10.1016/j.cpc.2005.01.010>), and the source files of the 'Cuhre' function are included in this package. The maximization process is carried out using Brent's algorithm, with the 'C++' code file from John Burkardt and John Denker (Brent, R.,Algorithms for Minimization without Derivatives, Dover, 2002, ISBN 0-486-41998-3).

Author
Jiaxing Lin, Alexander Sibley, Tracy Truong, Nancy Cox, Eileen Dolan, Yu Jiang, Janice McCarthy, Andrew Allen, Kouros Owzar, Zhiguo Li
Date of publication
2016-11-30 20:03:55
Maintainer
Jiaxing Lin <jiaxing.lin@duke.edu>
License
GPL (>= 2)
Version
1.0.2

View on CRAN

Man pages

alphaEst
Estimate the Interval Baseline Survival Rates for...
betaEst
Estimate the Fixed Effect Parameter for Discrete-Time...
lclGWAS-package
Efficient Estimation of Multivariate Frailty Model Using...
varEst
Estimate the Frailty Variance for Discrete-Time Multivariate...

Files in this package

lclGWAS
lclGWAS/inst
lclGWAS/inst/doc
lclGWAS/inst/doc/lclGWAS.Rnw
lclGWAS/inst/doc/lclGWAS.pdf
lclGWAS/inst/doc/lclGWAS.R
lclGWAS/src
lclGWAS/src/decl.h
lclGWAS/src/Makevars
lclGWAS/src/alphaEst.cpp
lclGWAS/src/common.h
lclGWAS/src/fam_LLBeta.h
lclGWAS/src/varEst.cpp
lclGWAS/src/integrand.h
lclGWAS/src/likelihood_ind.h
lclGWAS/src/stddecl.h
lclGWAS/src/fam_LLVar.h
lclGWAS/src/config.h
lclGWAS/src/ChiSquare.h
lclGWAS/src/betaEst.cpp
lclGWAS/src/fminbr.h
lclGWAS/src/famSize.h
lclGWAS/src/util.h
lclGWAS/src/debug.h
lclGWAS/src/cuba.h
lclGWAS/src/global.h
lclGWAS/src/Erf.h
lclGWAS/src/fminbr.cpp
lclGWAS/src/Cuhre.c
lclGWAS/src/Rule.h
lclGWAS/src/Makevars.win
lclGWAS/src/RcppExports.cpp
lclGWAS/src/Integrate.h
lclGWAS/NAMESPACE
lclGWAS/NEWS
lclGWAS/R
lclGWAS/R/RcppExports.R
lclGWAS/vignettes
lclGWAS/vignettes/lclGWAS.Rnw
lclGWAS/MD5
lclGWAS/build
lclGWAS/build/vignette.rds
lclGWAS/DESCRIPTION
lclGWAS/man
lclGWAS/man/varEst.Rd
lclGWAS/man/alphaEst.Rd
lclGWAS/man/lclGWAS-package.Rd
lclGWAS/man/betaEst.Rd