2 Compartment Model with Michelis Menton Clearance
2 Compartment Model
Infusion_1CPT -- 1 Compartment Model Simulated Data from ACOP 2016
Bootstrap data
Cox Box, Yeo Johnson and inverse transformation
Oral_1CPT -- 1 Compartment Model with Oral Absorption Simulated Data from ACOP 2016
NPDE calculation for nlmixr
Add CWRES
Log-likelihood using Gaussian Quadrature
Covariance matrix by Fisher Information Matrix via linearization
Convert fit to FOCEi style fit
Return VarCorr for nlmixr nlme
This gets the parsed data in the lower-level manner that nlmixr expects.
Calculate gnlmm variance-covariance matrix of fixed effects
Simulated Data Set for comparing objective functions
Fit a non-population dynamic model using mcmc
Change a nlmixr fit object to a huxtable
Return composite saem/focei to saem
Generalized Cholesky Matrix Decomposition
Get the FOCEi theta specification for the model
Forward covariate selection for nlme-base non-linear mixed effect models
Control Options for FOCEi
Generate an SAEM model
Get the FOCEi theta or eta specification for model.
instant.stan.extension.
Inverse Guassian absorption model
Bolus_1CPT -- 1 Compartment Model Simulated Data from ACOP 2016
1 Compartment Model w/ Michelis Menton Elimination
FOCEi fit
Parent/Metabolite dataset
Fit/Evaulate FOCEi
Return composite nlme/focei to nlme
concentrations from a linear compartment model
Fit a non-population dynamic model
nlmixr model block
Extract the Nlmixr bound information from a function.
Sets nodes and weigts of Gauss-Hermite quadrature
Fit a generalized nonlinear mixed-effect model
Configure an SAEM model
nlmixr ini block handling
nlmixr fits population PK and PKPD non-linear mixed effects models.
Print x using the message facility
Augmented Prediction for nlmixr fit
Construct RxODE linCmt function
Simulate a nlmixr solved system
Get initial estimate for bres SAEM.
Get initial estimate for ares SAEM.
nlmixrBounds.focei.upper.lower
Get upper/lower/names for THETAs
Cleanup saem_fit environment by removing dll after the object is no logner used by R.
Extract residuals from the FOCEI fit
SAEM's init$omega
Control Options for SAEM
Plot a nlmixr data object
Get saem initilization list
Plot of a non-population dynamic model fit using mcmc
Fit an SAEM model
Calculate gnlmm variance-covariance matrix of random effects
Generate saem.fit user function.
Get ETA names
Prepares the UI function and returns a list.
Return dynmodel variable translation function
Convert/Format the data appropriately for nlmixr
Messages the nlmixr logo...
Fit nlme-based linear compartment mixed-effect model using closed form solution
Predict a nlmixr solved system
Create the nlme parameter transform function from the UI object.
Fit nlme-based mixed-effect model using ODE implementation
Fit a nlmixr model
Get a list of directories for inclusion
Find the assignments in R expression
Return RxODE model with predictions appended
nlmixrUI.saem.distribution
Get SAEM distribution
Create the nlme specs list for nlmixr nlme solving
Create a gradient function based on gill numerical differences
Get the variance for the nlme fit process based on UI
Calculate Hessian
Get the eta->eta.trans for SAEM
Get parameters that are fixed for SAEM
Print a non-population dynamic model fit object
Return the objective function
Summary of a non-population dynamic model fit using mcmc
Summary of a non-population dynamic model fit
GOF plots for nlme-based mixed-effect models
Generate SAEM model list
Parameters for a linear compartment model for SAEM
Access the model list information for nlmixr's nlme user functions
Clear memoise cache for nlmixr
nlmixrUI.saem.model.omega
Get the SAEM model Omega
Summary of a non-population dynamic model fit using mcmc
Create a run summary word document
Create a large output based on a nlmixr fit
Convert data to RxODE format (depreciated)
Plot of a non-population dynamic model fit
Get the Parameter function with THETA/ETAs defined
Get THETA names for nlmixr's SAEM
Pregnant Rat Diet Experiment
Single Dose Phenobarbitol PK/PD
Nelder-Mead of simplex search
Pump failure example dataset
Print an SAEM model fit summary
Get parameters that are fixed
Get the optimal forward difference interval by Gill83 method
Objects exported from other packages
Multiple dose Theophiline PK data
Multiple dose Theophiline PK data
Get the SAEM model$res.mod code
Prediction after a gnlmm fit
Print UI function
Print a gnlmm fit
Produce trace-plot for fit if applicable
Plot an SAEM model fit
Get error names for SAEM
Get the FOCEi initializations
Set Objective function type for a nlmixr object
Return the square root of general square matrix A
Vpc function for nlmixr
Dispaly nlmixr's version
Print an SAEM model fit summary
Visual predictive check (VPC) for nlmixr nlme objects
Output table/data.frame options
Get model$log.eta for SAEM
Validate nlmixr
Generate SAEM initial estimates for THETA.
VPC for nlmixr saemFit objects
Warfarin PK/PD data
VPC based on ui model