Package: survextrap 0.8.15

survextrap: Survival Extrapolation with a Flexible Parametric Model and External Data

Survival analysis using a flexible Bayesian model for individual-level right-censored data, optionally combined with aggregate data on counts of survivors in different periods of time. An M-spline is used to describe the hazard function, with a hierarchical prior on the coefficients to control overfitting. Proportional hazards or flexible non-proportional hazards models can be used to relate survival to predictors. Mixture cure models, additive hazards (relative survival) models and waning treatment effects models are also supported. Priors can be customised and calibrated to substantive beliefs. Posterior distributions are estimated using Stan, and outputs are arranged in a tidy format. See See Jackson (2023) <doi:10.48550/arXiv.2306.03957>.

Authors:Christopher Jackson [aut, cre, cph], Iain Timmins [ctb]

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Bug tracker:https://github.com/chjackson/survextrap/issues

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53 exports 7 stars 1.95 score 60 dependencies 10 scripts

Last updated 3 months agofrom:ca68e6a3be. Checks:OK: 1 NOTE: 8. Indexed: yes.

Exports:cumhazdsurvmsplinedsurvmspline_waneget_drawshazardhazard_ratiohrtimehsurvmsplineHsurvmsplinehsurvmspline_waneHsurvmspline_waneirmstmean_survmsplinemean_survmspline_wanemspline_basismspline_constant_coefsmspline_initmspline_list_initmspline_plotdatamspline_plotsetupmspline_specmsplinemodel_initp_betap_gammap_hrp_meansurvp_normalp_tplot_hazardplot_hazard_ratioplot_msplineplot_prior_hazardplot_survivalprint_priorsprior_haz_constprior_haz_sdprior_hrprior_hr_sdprior_predprior_sample_hazardpsurvmsplinepsurvmspline_waneqsurvmsplineqsurvmspline_wanermstrmst_survmsplinermst_survmspline_wanersurvmsplinersurvmspline_wanestandardise_tostandardize_tosurvextrapsurvival

Dependencies:abindbackportsbbmlebdsmatrixBHcallrcheckmateclicolorspacedescdistributionalfansifarverfastGHQuadgenericsggplot2gluegridExtragtableinlineisobandlabelinglatticelifecycleloomagrittrMASSMatrixmatrixStatsmgcvmunsellmvtnormnlmenumDerivpillarpkgbuildpkgconfigposteriorprocessxpsQuickJSRR6RColorBrewerRcppRcppArmadilloRcppEigenRcppParallelrlangrstanrstpm2scalessplines2StanHeaderssurvivaltensorAtibbleutf8vctrsviridisLitewithr