[英]Error running using rpy2 for survival analysis
I'm trying to perform survival analysis with R with rpy2 in ipython. 我正在尝试在ipython中使用rpy2用R执行生存分析。
The following formulation fails: 以下公式失败:
%Rpush df
surv_fit = surv.coxph("Surv(start, end, status) ~ x", data=df)
> RRuntimeError: Error: $ operator is invalid for atomic vectors
But if I do it all using r magic, it works: 但是,如果我全部使用r magic做到这一点,它将起作用:
%Rpush df
%R surv.fit <- coxph(Surv(start, end, status) ~ x, data=df)
Is there an issue with the Surv object? Surv对象有问题吗?
This is because %Rpush
is pushing the variable to R. 这是因为%Rpush
将变量推入R。
Your first example would then have to be: surv_fit = rpy2.robjects.r(""" surv.coxph(Surv(start, end, status) ~ x, data=df) """)
然后,您的第一个示例将是: surv_fit = rpy2.robjects.r(""" surv.coxph(Surv(start, end, status) ~ x, data=df) """)
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