R implementation of generalized survival models (GSMs), smooth accelerated failure time (AFT) models and Markov multistate models. For the GSMs, g(S(tx))=eta(t,x) for a link function g, survival S at time t with covariates x and a linear predictor eta(t,x). The main assumption is that the time effect(s) are smooth <doi:10.1177/0962280216664760>. For fully parametric models with natural splines, this reimplements Stata's 'stpm2' function, which are flexible parametric survival models developed by Royston and colleagues. We have extended the parametric models to include any smooth parametric smoothers for time. We have also extended the model to include any smooth penalized smoothers from the 'mgcv' package, using penalized likelihood. These models include left truncation, right censoring, interval censoring, gamma frailties and normal random effects <doi:10.1002/sim.7451>, and copulas. For the smooth AFTs, S(tx) = S_0(t*eta(t,x)), where the baseline survival function S_0(t)=exp(exp(eta_0(t))) is modelled for natural splines for eta_0, and the timedependent cumulative acceleration factor eta(t,x)=\int_0^t exp(eta_1(u,x)) du for log acceleration factor eta_1(u,x). The Markov multistate models allow for a range of models with smooth transitions to predict transition probabilities, length of stay, utilities and costs, with differences, ratios and standardisation.
Package details 


Author  Mark Clements [aut, cre], XingRong Liu [aut], Benjamin Christoffersen [aut], Paul Lambert [ctb], Lasse Hjort Jakobsen [ctb], Alessandro Gasparini [ctb], Gordon Smyth [cph], Patrick Alken [cph], Simon Wood [cph], Rhys Ulerich [cph] 
Maintainer  Mark Clements <mark.clements@ki.se> 
License  GPL2  GPL3 
Version  1.5.2 
URL  https://github.com/mclements/rstpm2 
Package repository  View on CRAN 
Installation 
Install the latest version of this package by entering the following in R:

Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.