| clinDR-package {clinDR} | R Documentation |
Bayesian and maximum likelihood Emax model fitting, graphics and simulation for clinical dose response.
Description
The functions fitEmax and fitEmaxB fit an Emax model
to binary or continuous data using maximum likelihood or Bayesian estimation.
They have several generic supporting functions.
Functions to produce plots associated with dose response
analyses are (plotD, plotB,
plot.fitEmax,plot.fitEmaxB).
The functions emaxsim and emaxsimB perform
simulations of 4- and 3-parameter Emax ML or Bayesian estimation.
The ML estimates are replaced with alternative
model fits when the primary estimation fails. Several supporting
functions are supplied to analyze the output of emaxsim
and emaxsimB,
including analyses for specific simulated data sets. All of the data sets
from dose response meta analyses are included in
metaData.
Details
The function compileStanModels must be executed once after the package is
installed to create compiled STAN Emax models before the Bayes functions
in the package can be executed. This requires 3-10 minutes to complete on most
machines. The compiled code is 32-bit or 64-bit specific, and both must be created if
both versions of R are used.
The Bayesian computations use the R package rstan. It can be installed from CRAN. Windows users should check the instructions for rstan at the https://mc-stan.org and https://github.com/stan-dev/rstan/wiki/RStan-Getting-Started.
Note that Rtools must be installed, which is a simple, but often overlooked step. Instructions for its installation are given in the second URL.
Author(s)
Neal Thomas [aut, cre], Jing Wu[aut]