[R] how to calculate True Positive Rate in R?

[Eric Berger]

https://cran.r-project.org/web/packages/qvalue/index.html
states
 Package ‘qvalue’ was removed from the CRAN repository.
Just an FYI

On Tue, Sep 24, 2019 at 6:48 PM Ana Marija <sokovic.anamarija using gmail.com>
wrote:

> Hello,
>
> I tried using qvalue function:
>
>     library(qvalue)
>     qval_obj=qvalue(pvalR)
>     pi1=1-qval_obj$pi0
>
> but after running:
>
>     qval_obj=qvalue(pvalR)
>     Error in smooth.spline(lambda, pi0, df = smooth.df) :
>       missing or infinite values in inputs are not allowed
>
> or
>
>      qval_obj=qvalue(pvalR,lambda=0.5)
>     Error in pi0est(p, ...) :
>       ERROR: The estimated pi0 <= 0. Check that you have valid
> p-values or use a different range of lambda.
>
> I checked:
>
>     max(pvalR)
>     [1] 0.000352731
>     min(pvalR)
>     [1] 1.84872e-127
>     sum(is.na(pvalR))
>    [1] 0
>    sum(is.infinite(pvalR))
>    [1] 0
>
> Please advise,
>
> Thanks
> Ana
>
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