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| clinDR-package | Bayesian and maximum likelihood Emax model fitting, graphics and simulation for clinical dose response. |
| "Extract.emaxsim" | Extract a simulation from the output of emaxsim |
| "Extract.emaxsimB" | Extract a simulation from the output of emaxsimB |
| checkMonoEmax | Bayes posterior predictive test for Emax (monotone) model fit |
| coef.emaxsim | Extract Emax model parameter estimates |
| coef.emaxsimB | Extract Emax model parameter estimates |
| coef.fitEmax | Extract Emax model parameter estimates |
| coef.fitEmaxB | Extract Emax model parameter estimates |
| compileStanModels | Compile 'rstan' Emax models after package 'clinDR' is installed |
| DRDensityPlot | Plot Bayes or confidence interval density contours over a grid of points (usually dose or time) |
| emaxalt | Fit 4- or 3-parameter Emax model substituting simpler curves if convergence not achieved. |
| emaxfun | Vectorized versions of the hyperbolic and sigmoidal Emax models |
| emaxPrior.control | Set the parameters of the prior distribution for the Emax model implemented in 'fitEmaxB'. |
| emaxsim | Simulate Emax maximum likelihood estimation |
| emaxsimB | Simulate Emax Bayesian estimation |
| fitEmax | ML fit of hyperbolic or sigmoidal Emax models to continuous/binary dose response data. |
| fitEmaxB | Bayesian fit of hyperbolic or sigmoidal Emax models to continuous/binary dose response data. |
| FixedMean | Fixed means (proportions) random data constructor for emaxsim for continuous or binary data |
| mcmc.control | Settings for 'restan' execution in function 'fitEmaxB' |
| metaData | Dose response data from several published meta-analyses |
| nllogis | The negative log likelihood function for a 3- or 4- parameter Emax model on the logit scale for binary dose response. |
| plot.emaxsim | Plot the output of emaxsim |
| plot.emaxsimB | Plot the output of emaxsimB |
| plot.emaxsimBobj | Plot dose response from a data set generated by emaxsimB |
| plot.emaxsimobj | Plot dose response from a data set generated by emaxsim |
| plot.fitEmax | Plot a Emax model and dose group means. |
| plot.fitEmaxB | Plot a Emax model and dose group means. |
| plot.plotB | Plot Bayes dose response curve and dose group means |
| plotB | Plot Bayes dose response curve and dose group means |
| plotBdensity | Density plot displaying Bayes prior or posterior dose response |
| plotD | Basic plot of dose group means |
| predict.emaxalt | Mean response and SE for specified doses for a simulated object output by function emaxalt |
| predict.emaxsim | Mean response and SE for specified doses for each replicate data set in an emaxsim object |
| predict.emaxsimB | Mean response and SE for each replicate data set in an emaxsimB object |
| predict.emaxsimBobj | Mean response estimates (posterior means) and SE (posterior SD) for specified doses for a simulated emaxsimBobj object |
| predict.emaxsimobj | Mean response and SE for specified doses for a simulated emaxsimobj object |
| predict.fitEmax | Estimated mean/proportion and confidence intervals derived from the maximum likelihood fit of a 3- or 4- parameter Emax model. |
| predict.fitEmaxB | Estimated mean and posterior intervals derived from a Bayesian hyperbolic or sigmiodial Emax model. |
| print.emaxsim | Print simulation output from emaxsim |
| print.emaxsimB | Print simulation output from emaxsimB |
| print.emaxsimBobj | Print a summary of the fitted Emax model |
| print.emaxsimobj | Print a data set generated by emaxsim |
| print.fitEmax | Print a summary of the fitted Emax model |
| print.fitEmaxB | Print a summary of the fitted Bayesian Emax model |
| prior.control | Set the parameters of the prior distribution for the Emax model implemented in 'fitEmaxB'. |
| RandEmax | Random data constructor function for emaxsim creating random parameters for an Emax model for continuous or binary data. |
| runShiny | Shiny app for function 'emaxsim(B)' |
| SeEmax | Asymptotic SE for dose response estimates from a 3- or 4- parameter Emax model |
| selEstan | Select a pre-compiled 'rstan' Emax model |
| showStanModels | Display 'STAN' model code. |
| sigma.emaxsim | Extract Emax model residual SD estimates |
| sigma.emaxsimB | Extract Emax model residual SD estimates |
| sigma.fitEmax | Extract Emax model residual SD estimates |
| sigma.fitEmaxB | Extract Emax model residual SD estimates |
| solveDose | Solve Emax function for target value |
| solveEmax | Solve Emax function for target value |
| startEmax | Compute starting parameter values for the 3- or 4- Emax model. |
| summary.emaxsim | Summary of output of emaxsim |
| summary.emaxsimB | Summary of output of emaxsimB |
| summary.emaxsimBobj | Summarize Emax fit to a data set generated by emaxsimB |
| summary.emaxsimobj | Summarize Emax fit to a data set generated by emaxsim |
| summary.fitEmax | Print a summary of the fitted Emax model |
| summary.fitEmaxB | Print a summary of the fitted Bayesian Emax model |
| targetBeta | Find a scaled Beta distribution matching specified probabilities |
| targetCI | Compute the dose with confidence interval exceeding a target change from placebo for each simulated example in an emaxsim object. |
| targetD | Compute the MLE (and its SE) of the dose achieving a specified target improvement from placebo. |
| update.emaxsimobj | Update estimation in a data set generated by emaxsim |
| vcov.emaxsim | Extract Emax model variance-covariance matrix for ML estimates |
| vcov.fitEmax | Extract Emax model variance-covariance matrix for ML estimates |
| [.emaxsim | Extract a simulation from the output of emaxsim |
| [.emaxsimB | Extract a simulation from the output of emaxsimB |