77 lines
2.0 KiB
Plaintext
77 lines
2.0 KiB
Plaintext
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R Under development (unstable) (2018-05-10 r74706) -- "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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> # Test on the ovarian data
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>
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> fit1 <- coxph(Surv(futime, fustat) ~ rx + age, ovarian)
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> fit2 <- coxph(Surv(futime, fustat) ~ rx + pspline(age, df=2),
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+ data=ovarian)
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> fit2$iter
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[1] 2 8
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>
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> fit2$df
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[1] 0.9426611 1.9293051
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>
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> fit2$history
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$`pspline(age, df = 2)`
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$`pspline(age, df = 2)`$theta
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[1] 0.4468868
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$`pspline(age, df = 2)`$done
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[1] TRUE
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$`pspline(age, df = 2)`$history
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thetas dfs
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[1,] 1.0000000 1.000000
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[2,] 0.0000000 5.000000
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[3,] 0.6000000 1.734267
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[4,] 0.4845205 1.929305
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$`pspline(age, df = 2)`$half
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[1] 0
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>
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> fit4 <- coxph(Surv(futime, fustat) ~ rx + pspline(age, df=4),
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+ data=ovarian)
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> fit4
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Call:
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coxph(formula = Surv(futime, fustat) ~ rx + pspline(age, df = 4),
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data = ovarian)
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coef se(coef) se2 Chisq DF p
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rx -0.373 0.761 0.749 0.241 1.00 0.6238
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pspline(age, df = 4), lin 0.139 0.044 0.044 9.978 1.00 0.0016
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pspline(age, df = 4), non 2.592 2.93 0.4457
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Iterations: 3 outer, 14 Newton-Raphson
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Theta= 0.242
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Degrees of freedom for terms= 1.0 3.9
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Likelihood ratio test=19.4 on 4.9 df, p=0.001
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n= 26, number of events= 12
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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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0.808 0.040 0.847
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