Software Packages

Department of Quantitative Health Sciences
Mayo Clinic Research
Formerly known as the Department of Health Sciences Research

Related links: Division Overview R Shiny Applications
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Cumulative incidence in the presence of competing risks.


Mixed Effects Cox Models Cox proportional hazards models containing Gaussian random effects, also known as frailty models. Authors: Terry Therneau Available at: Language/Platform: R


Competing risk survival analysis with covariates.


Uses the method of Contal and O’Quigley (1999) to find the best cutpoint in a continuous variable with regards to a survival outcome.


Conducts likelihood ratio tests for nested logistic and Cox proportional hazards models.


Uses Graph Template Language to create a highly customizabile Kaplan-Meier curve.


Recursive Partitioning and Regression Trees Recursive partitioning for classification, regression and survival trees. An implementation of most of the functionality of the 1984 book by Breiman, Friedman, Olshen and Stone. Authors: Beth Atkinson Terry Therneau Brian Ripley (primary contact) Available at: Language/Platform: R


Schoenfeld residuals for proportional hazards model.


Complete Kaplan-Meier survival analysis with printing options and logrank statistic.


Calculates the c-statistic (concordance, discrimination index) for survived data with time dependent covariates


Survival Analysis Contains the core survival analysis routines, including definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models, and parametric accelerated failure time models. Authors: Terry Therneau (primary contact) Available at: Language/Platform: R  


General survival statistics p(t), standard error, confidence limits, and median survival time, for the left-truncated survival analyses.


Creates high-quality and easily customized Kaplan-Meier plots.