The goal of babelmixr2 is to convert nlmixr2 syntax to other commonly used tools.
You can install the released version of babelmixr2 from CRAN with:
install.packages("babelmixr2")
You can install from r-universe by:
# Download and install babelmixr2 in R
install.packages('babelmixr2',
repos = c(
nlmixr2 = 'https://nlmixr2.r-universe.dev',
CRAN = 'https://cloud.r-project.org'))
Otherwise you can always install from GitHub:
Babelmixr2 can help you by:
-
Running your nlmixr2 model in a commercial nonlinear mixed effects modeling tool like
NONMEM
orMonolix
-
Convert your
NONMEM
model to a nlmixr2 model (in conjunction withnonmem2rx
) -
Calculate scaling factors and automatically add initial conditions based on non-compartmental analysis (using
PKNCA
)
While not required, you can get/install the R ‘lixoftConnectors’ package in the ‘Monolix’ installation, as described at the following url https://monolix.lixoft.com/monolix-api/lixoftconnectors_installation/. When ‘lixoftConnectors’ is available, R can run ‘Monolix’ directly instead of using a command line.
After installed, if you use the standard interface, you can obtain new initial estimates with PKNCA:
mod <-
nlmixr2(
nlmixrFun, nlmmixrData, est = "pknca",
control = pkncaControl(concu = "ng/mL", doseu = "mg", timeu = "hr", volumeu = "L")
)
or, you can convert to Monolix with
mod <- nlmixr(nlmixrFun, nlmmixrData, est="monolix")
or, you can convert to NONMEM with
mod <- nlmixr(nlmixrFun, nlmmixrData, est="nonmem")