63 lines
1.9 KiB
Plaintext
63 lines
1.9 KiB
Plaintext
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R version 3.0.0 (2013-04-03) -- "Masked Marvel"
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Copyright (C) 2013 The R Foundation for Statistical Computing
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Platform: i686-pc-linux-gnu (32-bit)
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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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> #
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> # Test out anova, with strata terms
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> #
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> options(na.action=na.omit)
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> library(survival)
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Loading required package: splines
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>
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> fit1 <- coxph(Surv(time, status) ~ ph.ecog + wt.loss + strata(sex) +
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+ poly(age,3), lung)
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> ztemp <- anova(fit1)
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>
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> tdata <- na.omit(lung[, c('time', 'status', 'ph.ecog', 'wt.loss', 'sex', 'age')])
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> fit2 <- coxph(Surv(time, status)~ ph.ecog + wt.loss + poly(age,3) + strata(sex),
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+ data=tdata)
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> ztemp2 <- anova(fit2)
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> all.equal(ztemp, ztemp2)
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[1] TRUE
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>
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>
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> fit2 <- coxph(Surv(time, status) ~ ph.ecog + wt.loss + strata(sex), tdata)
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> fit3 <- coxph(Surv(time, status) ~ ph.ecog + strata(sex), tdata)
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>
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> all.equal(ztemp$loglik, c(fit1$loglik[1], fit3$loglik[2], fit2$loglik[2],
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+ fit1$loglik[2]))
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[1] TRUE
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> all.equal(ztemp$Chisq[-1], 2* diff(ztemp$loglik))
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[1] TRUE
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> all.equal(ztemp$Df[-1], c(1,1,3))
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[1] TRUE
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>
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> ztemp2 <- anova(fit3, fit2, fit1)
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> all.equal(ztemp2$loglik, ztemp$loglik[-1])
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[1] TRUE
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> all.equal(ztemp2$Chisq[2:3], ztemp$Chisq[3:4])
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[1] TRUE
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> # Change from ztemp2$P; it's a data frame and in R 3.0.2 abbreviated names
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> # give a warning
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> all.equal(ztemp2[[4]][2:3], ztemp[[4]][3:4])
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[1] TRUE
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>
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>
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>
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> proc.time()
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user system elapsed
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0.284 0.020 0.301
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