Function reference

survextrap()
 Flexible Bayesian parametric survival models

p_normal()
p_t()
p_beta()
p_gamma()
 Prior distributions and options

prior_sample()
 Sample from the joint prior of parameters in a survextrap model

p_meansurv()
 Derive a normal prior for the log hazard scale parameter based on a guess at survival times

p_hr()
 Derive a normal prior for the log hazard ratio parameter based on a guess at the hazard ratio

prior_haz_const()
 Summarises the prior for the constant hazard implied by a particular prior on the hazard scale parameter and spline specification.

prior_haz_sd()
prior_hr_sd()
 Determine priors for timevarying hazards and hazard ratios

prior_hr()
 Summarises the prior for the hazard ratio implied by a particular prior on the log hazard ratio

prior_sample_hazard()
plot_prior_hazard()
 Generate and/or plot a sample from the prior distribution of Mspline hazard curves

prior_pred()
 Simulate a dataset from the prior predictive distribution of survival times in an Mspline survival model.

print_priors()
 Print the priors used in a fitted survextrap model

print(<survextrap>)
 Print a fitted survextrap model

summary(<survextrap>)
 Posterior summary statistics for parameters of survextrap models

survival()
 Estimates of survival from a
survextrap
model

hazard()
 Estimates of hazard from a
survextrap
model

cumhaz()
 Estimates of cumulative hazard from a survextrap model

hazard_ratio()
 Hazard ratio against time in a survextrap model

standardise_to()
standardize_to()
 Constructor for a standardising population used for survextrap outputs

plot_survival()
 Plot survival curves from a survextrap model

plot_hazard()
 Plot hazard curves from a survextrap model

plot_hazard_ratio()
 Plot hazard ratio against time from a survextrap model

plot(<survextrap>)
 Plot method for survextrap model objects

mean(<survextrap>)
 Mean survival time

rmst()
 Restricted mean survival time

irmst()
 Incremental restricted mean survival time

get_cum_backhaz()
 Cumulative background hazards

get_draws()
 Posterior draws from a survextrap model

hrtime()
 Hazard ratio between high and low values of the hazard over time

colons
 Colon cancer survival data

cetux
cetux_seer
cetux_bh
 Datasets for evaluation of cetuximab in head and neck cancer

curedata
 Simulated data for testing mixture cure models

psurvmspline()
Hsurvmspline()
hsurvmspline()
dsurvmspline()
qsurvmspline()
rsurvmspline()
rmst_survmspline()
mean_survmspline()
 Mspline survival distribution

Hsurvmspline_wane()
psurvmspline_wane()
hsurvmspline_wane()
dsurvmspline_wane()
qsurvmspline_wane()
rsurvmspline_wane()
rmst_survmspline_wane()
mean_survmspline_wane()
 Mspline survival distribution under treatment effect waning

mspline_spec()
 Make default Mspline knot specification given a survival dataset.

mspline_basis()
 Evaluate an Mspline basis matrix at the specified times.

mspline_constant_coefs()
 Determine Mspline basis coefficients which give a constant function.

mspline_plotdata()
 Data for plotting an Mspline function, showing how it is built up from its basis

mspline_plotsetup()
 Get basis for an illustration of an Mspline with given knots.

plot_mspline()
 Plot a Mspline function, showing how it is built up from its basis

mspline_init()
 Create a default Mspline model structure

mspline_list_init()
 Validate an Mspline object supplied as a list, choosing defaults if needed.

msplinemodel_init()
 Create an Mspline survival model, both structure and parameters.

survextrappackage
 The 'survextrap' package.