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papci  

Prevalence Adjusted PPV Confidence Interval
View on CRAN: Click here


Download and install papci package within the R console
Install from CRAN:
install.packages("papci")

Install from Github:
library("remotes")
install_github("cran/papci")

Install by package version:
library("remotes")
install_version("papci", "0.1.0")



Attach the package and use:
library("papci")
Maintained by
Cui Guo
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-09-14
Latest Update: 2021-09-14
Description:
Positive predictive value (PPV) defined as the conditional probability of clinical trial assay (CTA) being positive given Companion diagnostic device (CDx) being positive is a key performance parameter for evaluating the clinical validity utility of a companion diagnostic test in clinical bridging studies. When bridging study patients are enrolled based on CTA assay results, Binomial-based confidence intervals (CI) may are not appropriate for PPV CI estimation. Bootstrap CIs which are not restricted by the Binomial assumption may be used for PPV CI estimation only when PPV is not 100%. Bootstrap CI is not valid when PPV is 100% and becomes a single value of [1, 1]. We proposed a risk ratio-based method for constructing CI for PPV. By simulation we illustrated that the coverage probability of the proposed CI is close to the nominal value even when PPV is high and negative percent agreement (NPA) is close to 100%. There is a lack of R package for PPV CI calculation. we developed a publicly available R package along with this shiny app to implement the proposed approach and some other existing methods.
How to cite:
Cui Guo (2021). papci: Prevalence Adjusted PPV Confidence Interval. R package version 0.1.0, https://cran.r-project.org/web/packages/papci. Accessed 21 Nov. 2024.
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Complete documentation for papci
Functions, R codes and Examples using the papci R package
Some associated functions: agreement . papciUI . 
Some associated R codes: agreement.R . papciUI.R .  Full papci package functions and examples
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