51 lines
1.8 KiB
Plaintext
51 lines
1.8 KiB
Plaintext
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R Under development (unstable) (2018-04-09 r74565) -- "Unsuffered Consequences"
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Copyright (C) 2018 The R Foundation for Statistical Computing
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Platform: x86_64-pc-linux-gnu (64-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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> 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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>
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> #
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> # A simple test of an overdetermined system
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> # Should give a set of NA coefficients
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> #
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> test1 <- data.frame(time= c(4, 3,1,1,2,2,3),
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+ status=c(1,NA,1,0,1,1,0),
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+ x= c(0, 2,1,1,1,0,0))
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>
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> temp <- rep(0:3, rep(7,4))
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>
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> stest <- data.frame(start = 10*temp,
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+ stop = 10*temp + test1$time,
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+ status = rep(test1$status,4),
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+ x = c(test1$x+ 1:7, rep(test1$x,3)),
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+ epoch = rep(1:4, rep(7,4)))
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>
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> # Will create a warning about a singular X matrix
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> fit1 <- coxph(Surv(start, stop, status) ~ x * factor(epoch), stest)
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> fit1$coef # elements 2:4 should be NA
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x factor(epoch)2 factor(epoch)3 factor(epoch)4
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0.1041579 NA NA NA
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x:factor(epoch)2 x:factor(epoch)3 x:factor(epoch)4
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1.5726996 1.5726996 1.5726996
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> all.equal(is.na(fit1$coef), c(F,T,T,T,F,F,F), check.attributes=FALSE)
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[1] TRUE
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>
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> proc.time()
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user system elapsed
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0.668 0.040 0.704
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