Cox-type models for interval-censored data
Matrix, parallel, survival, timereg, R (>= 2.13.0)
Fits Cox-type models based on interval-censored data from a survival
or illness-death process

Cox-Type Models for Interval-Censored Data
Fits Cox-type models based on interval-censored data from a survival
or illness-death process.

Cox proportional hazards models containing Gaussian random
effects, also known as frailty models.

survival, bdsmatrix, nlme, R (>= 2.12.0)

survival, bdsmatrix (>= 1.3), nlme, Matrix (>= 1.0), methods,
R (>= 2.12.0)

survival (>= 2.36.14), methods, bdsmatrix(>= 1.3)
person(c("Terry", "M."), "Therneau", role=c("aut", "cre"),
email="therneau@mayo.edu")

This package fits Cox proportional hazards models containing both
fixed and random effects.  The random effects can have a general form, of which
familial interactions (a "kinship" matrix) is a particular special case.
Note that the simplest case of a mixed effects Cox model, i.e. a single random
per-group intercept, is also called a "frailty" model.  The approach is based
on Rippatti and Palgren, Biometrics 2002.

Fit Cox proportional hazards models containing both
fixed and random effects.  The random effects can have a general form, of which
familial interactions (a "kinship" matrix) is a particular special case.
Note that the simplest case of a mixed effects Cox model, i.e. a single random
per-group intercept, is also called a "frailty" model.  The approach is based
on Ripatti and Palmgren, Biometrics 2002.

person(c("Terry", "M."), "Therneau", role=c("aut", "cre"),
email="therneau.terry@mayo.edu")

Cox Mixed-Effects Models for Genome-Wide Association Studies
Fast algorithms for fitting a Cox mixed-effects model for e.g., genome-wide association studies. See Liang He and Alexander Kulminski (2019) <doi:10.1101/729285>.
nloptr, MASS, matrixcalc, SNPRelate, rARPACK, stats, Matrix,
methods, utils, coxme, microbenchmark

nloptr, MASS, matrixcalc, SNPRelate, SeqArray, rARPACK, stats,
Matrix, methods, utils, microbenchmark
coxme, gdsfmt, GENESIS, knitr, rmarkdown, testthat