Mercurial > repos > testtool > survival
annotate survival/survival.R @ 2:ce6df2bd21cd draft
Uploaded
author | testtool |
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date | Fri, 29 Sep 2017 18:41:35 -0400 |
parents | 5b70a33bf327 |
children | 744cf0f4d1b1 |
rev | line source |
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1 | 1 require(survival, quietly = TRUE) |
0 | 2 args <- commandArgs(trailingOnly = TRUE) |
3 | |
4 input =args[1] | |
5 fit = args[2] | |
6 png = args[3] | |
7 | |
2 | 8 tofit <- survival::survfit(Surv(obsT, status) ~ X1, type="kaplan-meier", conf.type="log", data=read.csv(input)) |
0 | 9 |
2 | 10 res <- summary(tofit,times=c(1,2,3)) |
0 | 11 save.df <- as.data.frame(res[c("strata", "time", "n.risk", "n.event", "surv", "std.err", "lower", "upper")]) |
2 | 12 write.csv(save.df, fit) |
0 | 13 |
2 | 14 png(png) |
15 plot(tofit) | |
0 | 16 dev.off() |
17 |