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comparison survival/survival.R @ 0:6cc0c5eb71b2 draft

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author testtool
date Fri, 29 Sep 2017 18:11:27 -0400
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children 5b70a33bf327
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-1:000000000000 0:6cc0c5eb71b2
1 args <- commandArgs(trailingOnly = TRUE)
2
3 input =args[1]
4 fit = args[2]
5 png = args[3]
6
7 #fit a Kaplan-Meier and plot it
8 input<-("test-data/input.csv")
9 fit <- survfit(Surv(obsT, status) ~ X1, type="kaplan-meier", conf.type="log", data=read.csv(input))
10
11 res <- summary(fit,times=c(1,2,3))
12 save.df <- as.data.frame(res[c("strata", "time", "n.risk", "n.event", "surv", "std.err", "lower", "upper")])
13 write.csv(save.df, file = "survfit.csv")
14
15 png("fit.png")
16 plot(fit)
17 dev.off()
18