library(survey) library(survival) set.seed(2021-6-25) test1 <- list(time=c(4,3,1,1,2,2,3), status=c(1,1,1,0,1,1,0), x1=as.factor(rbinom(7, 2, 0.5)), x=c(0,2,1,1,1,0,0)) # Fit a stratified model mod_c <- coxph(Surv(time, status) ~ x1 + x, test1) mod_d <- coxph(Surv(time, status) ~ x + x1, test1) stopifnot(all.equal(regTermTest(mod_c, ~x1, df = Inf)[c("chisq","df","test.terms","p")], regTermTest(mod_d, ~x1, df = Inf)[c("chisq","df","test.terms","p")])) data(pbc, package="survival") pbc$randomized<-with(pbc, !is.na(trt) & trt>0) biasmodel<-glm(randomized~age*edema,data=pbc,family=binomial) pbc$randprob<-fitted(biasmodel) if (is.null(pbc$albumin)) pbc$albumin<-pbc$alb ##pre2.9.0 dpbc<-svydesign(id=~1, prob=~randprob, strata=~edema, data=subset(pbc,randomized)) library(splines) model<-svycoxph(formula = Surv(time, status > 0) ~ bili + protime + albumin+ns(bili,4)[,1:3], design = dpbc) test<-regTermTest(model, ~ns(bili,4)[,1:3],method="LRT") stopifnot(all.equal(test$chisq, 47.314, tolerance=1e-4)) stopifnot(all.equal(test$lambda, c(1.4764260, 1.0109836, 0.6923415),tolerance=1e-4))