Clinical Trial Designs in 'RStan'


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Documentation for package ‘trialr’ version 0.0.1

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trialr-package Clinical Trial Designs in 'RStan'
BebopInPeps2 Stan model for BEBOP implementation in PePS2 clinical trial
EffTox Stan model for EffTox dose-finding design
efftox_analysis Processed results of an EffTox dose-update analysis
efftox_analysis_to_df EffTox analysis to data.frame
efftox_contour_plot Plot EffTox utility contours
efftox_dtps Calculate dose-transition pathways for an EffTox study
efftox_get_tox Get the probability of toxicity for probability-of-efficacy and utility pairs
efftox_parameters_demo Get parameters to run the EffTox demo
efftox_params Parameters to be passed to EffTox model in Stan
efftox_parse_outcomes Parse a string of EffTox outcomes to binary vector notation.
efftox_process Process RStan samples from an EffTox model
efftox_simulate Run EffTox simulations
efftox_solve_p Calculate the p-index for EffTox utility contours
efftox_superiority Get dose-superiority matrix in EffTox
efftox_utility Get the utility of efficacy & toxicity probability pairs
efftox_utility_density_plot Plot densities of EffTox dose utilities
model_BebopInPeps2 Stan model for BEBOP implementation in PePS2 clinical trial
model_EffTox Stan model for EffTox dose-finding design
model_ThallHierachicalBinary Stan model for Thall et al.'s hierarchical Bayesian model for binary data
model_ThallHierarchicalBinary Stan model for Thall et al.'s hierarchical Bayesian model for binary data
peps2_get_data Get data to run the PePS2 trial example
peps2_params Parameters to be passed to 'BebopInPeps2' model in Stan
peps2_process Process RStan samples from a BEBOP model fit to PePS2 data
peps2_run_sims Run simulations of BEBOP in PePS2
ranBin2 Sample pairs of correlated binary events
Rcpp_model_BebopInPeps2 Compiled Stan model for BEBOP implementation in PePS2 clinical trial
Rcpp_model_BebopInPeps2-class Compiled Stan model for BEBOP implementation in PePS2 clinical trial
Rcpp_model_EffTox Compiled Stan model for EffTox dose-finding design
Rcpp_model_EffTox-class Compiled Stan model for EffTox dose-finding design
Rcpp_model_ThallHierachicalBinary Compiled Stan model for Thall et al.'s hierarchical Bayesian model for binary data
Rcpp_model_ThallHierachicalBinary-class Compiled Stan model for Thall et al.'s hierarchical Bayesian model for binary data
Rcpp_model_ThallHierarchicalBinary Compiled Stan model for Thall et al.'s hierarchical Bayesian model for binary data
Rcpp_model_ThallHierarchicalBinary-class Compiled Stan model for Thall et al.'s hierarchical Bayesian model for binary data
stanmodels Stan models used by trialr
stan_files Stan file locations
ThallHierachicalBinary Stan model for Thall et al.'s hierarchical Bayesian model for binary data
ThallHierarchicalBinary Stan model for Thall et al.'s hierarchical Bayesian model for binary data
thallhierarchicalbinary_parameters_demo Get parameters to run the demo of Thall Hierarchical Binary model
thallhierarchicalbinary_params Parameters to be passed to the ThallHierachicalBinary model in Stan
trialr Clinical Trial Designs in 'RStan'