Simulation and Analysis Tools for Clinical Dose Response Modeling
Bayes posterior predictive test for Emax (monotone) model fit
Extract a simulation from the output of emaxsim
Extract a simulation from the output of emaxsimB
Bayes posterior predictive test for Emax (monotone) model fit
Bayesian and maximum likelihood Emax model fitting, graphics and simul...
Extract Emax model parameter estimates
Compile rstan Emax models after package clinDR is installed
Plot Bayes or confidence interval density contours over a grid of poin...
Fit 4- or 3-parameter Emax model substituting simpler curves if conver...
Vectorized versions of the hyperbolic and sigmoidal Emax models
Set the parameters of the prior distribution for the Emax model implem...
Simulate Emax maximum likelihood estimation
Simulate Emax Bayesian estimation
Solve Emax function for target value
ML fit of hyperbolic or sigmoidal Emax models to continuous/binary dos...
Bayesian fit of hyperbolic or sigmoidal Emax models to continuous/bina...
Fixed means (proportions) random data constructor for emaxsim for cont...
Settings for restan execution in function fitEmaxB
The negative log likelihood function for a 3- or 4- parameter Emax mod...
Plot the output of emaxsim
Plot the output of emaxsimB
Plot dose response from a data set generated by emaxsimB
Plot dose response from a data set generated by emaxsim
Plot a Emax model and dose group means.
Plot a Emax model and dose group means.
Plot Bayes dose response curve and dose group means
Plot Bayes dose response curve and dose group means
Density plot displaying Bayes prior or posterior dose response
Basic plot of dose group means
Mean response and SE for specified doses for a simulated object output...
Mean response and SE for specified doses for each replicate data set i...
Mean response and SE for each replicate data set in an emaxsimB object
Mean response estimates (posterior means) and SE (posterior SD) for sp...
Mean response and SE for specified doses for a simulated emaxsimobj ob...
Estimated mean/proportion and confidence intervals derived from the ma...
Estimated mean and posterior intervals derived from a Bayesian hyperbo...
Print protocol or sap text describing the prior distribution for the m...
Print simulation output from emaxsim
Print simulation output from emaxsimB
Print a summary of the fitted Emax model
Print a data set generated by emaxsim
Print a summary of the fitted Emax model
Print a summary of the fitted Bayesian Emax model
Set the parameters of the prior distribution for the Emax model implem...
Random data constructor function for emaxsim creating random parameter...
Random data constructor function for emaxsim(B) creating random parame...
Shiny app for function emaxsim(B)
Asymptotic SE for dose response estimates from a 3- or 4- parameter Em...
Select a pre-compiled rstan Emax model
Display STAN model code.
Extract Emax model residual SD estimates
Compute starting parameter values for the 3- or 4- Emax model.
Summary of output of emaxsim
Summary of output of emaxsimB
Summarize Emax fit to a data set generated by emaxsimB
Summarize Emax fit to a data set generated by emaxsim
Print a summary of the fitted Emax model
Print a summary of the fitted Bayesian Emax model
Find a scaled Beta distribution matching specified probabilities
Compute the dose with confidence interval exceeding a target change fr...
Compute the MLE (and its SE) of the dose achieving a specified target ...
Update estimation in a data set generated by emaxsim
Extract Emax model variance-covariance matrix for ML estimates
Bayesian and ML Emax model fitting, graphics and simulation for clinical dose response. The summary data from the dose response meta-analyses in Thomas, Sweeney, and Somayaji (2014) <doi:10.1080/19466315.2014.924876> and Thomas and Roy (2016) <doi:10.1080/19466315.2016.1256229> Wu, Banerjee, Jin, Menon, Martin, and Heatherington(2017) <doi:10.1177/0962280216684528> are included in the package. The prior distributions for the Bayesian analyses default to the posterior predictive distributions derived from these references.