Visualizing Survival Data with the {ggsurvfit} R Package
R/Medicine & R Consortium
🗓 January 25, 2024 | Time 4:00PM PST, 7:00PM EST
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Abstract
The {ggsurvfit} package eases the creation of time-to-event or survival analysis summary figures with {ggplot2}, such as a Kaplan-Meier plot. The concise and modular code creates figures ready for publication. Each {ggsurvfit} function (e.g. add_confidence_interval(), add_risktable(), etc.) is written as a proper {ggplot2} ‘geom’, meaning the package functions can be woven with {ggplot2} functions. The implication is that you do not need to learn new functions to style the plot: rather, you may rely on the suite of {ggplot2} functions you already know.
Lastly, the package includes gems for those using the CDISC ADaM ADTTE data model. The “PARAM” value is used to construct enhanced labels in the figure. The event indicator, “CNSR”, is coded in the opposite way the {survival} package expects. This difference creates an opportunity for errors to be silently introduced in an analysis. The {ggsurvfit} package exports a function called Surv_CNSR() to resolve this concern by creating a survival object that uses ADTTE coding conventions as the default. The function can be used in {ggsurvfit} as well as any other package with a survival endpoint.
Install {ggsurvfit} from CRAN with
install.packages('ggsurvfit')Author
Daniel D. Sjoberg (he/him) is a Senior Principal Data Scientist at Genentech. Previously, he was a Lead Data Science Manager at the Prostate Cancer Clinical Trials Consortium, and a Senior Biostatistician at Memorial Sloan Kettering Cancer Center in New York City. He enjoys R package development, creating many packages available on CRAN, R-Universe, and GitHub. His research interests include adaptive methods in clinical trials, precision medicine, and predictive modeling. Daniel is the winner of the 2021 American Statistical Association (ASA) Innovation in Statistical Programming and Analytics award.