52 lines
1.4 KiB
Plaintext
52 lines
1.4 KiB
Plaintext
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R version 2.11.1 (2010-05-31)
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Copyright (C) 2010 The R Foundation for Statistical Computing
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ISBN 3-900051-07-0
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R is free software and comes with ABSOLUTELY NO WARRANTY.
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You are welcome to redistribute it under certain conditions.
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Type 'license()' or 'licence()' for distribution details.
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R is a collaborative project with many contributors.
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Type 'contributors()' for more information and
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'citation()' on how to cite R or R packages in publications.
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Type 'demo()' for some demos, 'help()' for on-line help, or
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'help.start()' for an HTML browser interface to help.
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Type 'q()' to quit R.
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> options(na.action=na.exclude) # preserve missings
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> options(contrasts=c('contr.treatment', 'contr.poly')) #ensure constrast type
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> library(survival)
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Loading required package: splines
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>
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> #
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> # A test with the lung data
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> # This caused problems in one release
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>
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> #
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> # First, get rid of some missings
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> #
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> lung2 <- na.omit(lung[c('time', 'status', 'wt.loss')])
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>
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> #
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> # Test the logliklihoods
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> #
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> fit <- coxph(Surv(time, status) ~ pspline(wt.loss,3), lung2, x=T)
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> fit0<- coxph(Surv(time, status) ~ 1, lung2)
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> fit1<- coxph(Surv(time, status) ~ fit$x, lung2, iter=0, init=fit$coef)
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>
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> all.equal(fit$loglik[1], fit0$loglik)
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[1] TRUE
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> all.equal(fit$loglik[2], fit1$loglik[2])
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[1] TRUE
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>
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> #
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> # Check variances
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> #
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> imat <- solve(fit1$var)
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> var2 <- fit$var %*% imat %*% fit$var
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> all.equal(fit$var2, var2)
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[1] TRUE
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>
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