nlmixr

Bolus_1CPT – 1 Compartment Model Simulated Data from ACOP 2016

1 Compartment Model w/ Michaelis-Menten Elimination

2 Compartment Model

2 Compartment Model with Michaelis-Menten Clearance

Infusion_1CPT – 1 Compartment Model Simulated Data from ACOP 2016

Oral_1CPT – 1 Compartment Model with Oral Absorption Simulated Data from ACOP 2016

Return VarCorr for nlmixr nlme

Simulated Data Set for comparing objective functions

Add multiple covariates to a given model, sequentially or all at once

Adding covariate to a given variable in an nlmixr model expression

Add covariate expression to a function string

Add CWRES

NPDE calculation for nlmixr

Add table information to nlmixr fit object without tables

Convert fit to classic dynmodel object

Convert fit to FOCEi style fit

Output nlmixr format for dynmodel

Return composite nlme/focei to nlme

Return composite saem/focei to saem

Backward covariate search

Bootstrap data

Produce trace-plot for fit if applicable

Bootstrap nlmixr fit

Cox Box, Yeo Johnson and inverse transformation

Log-likelihood using Gaussian Quadrature

Covariance matrix by Fisher Information Matrix via linearization

Calculate gnlmm variance-covariance matrix of fixed effects

Generalized Cholesky Matrix Decomposition

Configure an SAEM model

Stepwise Covariate Model-selection (SCM) method

This gets the parsed data in the lower-level manner that nlmixr expects.

Fit a non-population dynamic model

Fit a non-population dynamic model using mcmc

Control Options for dynmodel

Get the FOCEi theta or eta specification for model.

Get the FOCEi theta specification for the model

Control Options for FOCEi

FOCEi fit

Fit/Evaulate FOCEi

Forward covariate search

Forward covariate selection for nlme-base non-linear mixed effect models

Sets nodes and weights of Gauss-Hermite quadrature

Generate an SAEM model

Calculate gnlmm variance-covariance matrix of random effects

Fit a generalized nonlinear mixed-effect model

Plot of a non-population dynamic model fit

nlmixr ini block handling

Initializing covariates before estimation

instant.stan.extension.

Inverse Guassian absorption model

concentrations from a linear compartment model

Create categorical covariates

Creating Hockey-stick covariates

Parent/Metabolite dataset

nlmixr model block

Access the model list information for nlmixr's nlme user functions

GOF plots for nlme-based mixed-effect models

Fit nlme-based linear compartment mixed-effect model using closed form solution

Fit nlme-based mixed-effect model using ODE implementation

nlmixr fits population PK and PKPD non-linear mixed effects models.

Augmented Prediction for nlmixr fit

Extract the nlmixr bound information from a function.

Get ETA names

Get upper/lower/names for THETAs

Functions to assist with setting initial conditions and boundaries

Convert/Format the data appropriately for nlmixr

Converting nlmixr objects to dynmodel objects

Generic for nlmixr estimation methods

Get the optimal forward difference interval by Gill83 method

Create a gradient function based on gill numerical differences

Calculate Hessian

Messages the nlmixr logo...

Get a posthoc estimate of x

Predict a nlmixr solved system

Print x using the message facility

Simulate a nlmixr solved system

nlmixTest function for testing

Prepares the UI function and returns a list.

Return dynmodel variable translation function

Return dynmodel variable translation function

Get parameters that are fixed

Get the FOCEi initializations

Create the nlme specs list for nlmixr nlme solving

Get the variance for the nlme fit process based on UI

Create the nlme parameter transform function from the UI object.

Return RxODE model with predictions appended

Get initial estimate for ares SAEM.

Get initial estimate for bres SAEM.

Get initial estimate for bres SAEM.

Get SAEM distribution

Get the eta->eta.trans for SAEM

Generate saem.fit user function.

Get parameters that are fixed for SAEM

Get saem initilization list

SAEM's init$omega

Generate SAEM initial estimates for THETA.

Get model$log.eta for SAEM

Generate SAEM model list

Get the SAEM model Omega

Get the SAEM model$res.mod code

Get error names for SAEM

Return RxODE model with predictions appended

Get THETA names for nlmixr's SAEM

Get the Parameter function with THETA/ETAs defined

Validate nlmixr

Display nlmixr's version

Fit a nlmixr model

Find the assignments in R expression

Convert data to RxODE format (depreciated)

Create a run summary word document

Create a large output based on a nlmixr fit

Nelder-Mead simplex search

Return the objective function

Perform normalization of the covariate

Single Dose Phenobarbitol PK/PD

Plot of a non-population dynamic model fit using mcmc

Plot a nlmixr data object

Plot an SAEM model fit

Calculate the inverse preconditioning matrix

Linearly re-parameterize the model to be less sensitive to rounding errors

Prediction after a gnlmm fit

Print a non-population dynamic model fit object

Print summary of a non-population dynamic model fit using mcmc

Print a gnlmm fit

Print UI function

Print an SAEM model fit summary

Pump failure example dataset

Pregnant Rat Diet Experiment

Objects exported from other packages

Removing multiple covariates

Remove covariate from function string

Remove covariate expression from a function string

Extract residuals from the FOCEI fit

Fit an SAEM model

Control Options for SAEM

Set the covariance type based on prior calculated covariances

Set/get Objective function type for a nlmixr object

Return the square root of general square matrix A

Summary of a non-population dynamic model fit

Print an SAEM model fit summary

Output table/data.frame options

Multiple dose theophylline PK data

Multiple dose theophylline PK data

Produce trace-plot for fit if applicable

Vpc function for nlmixr

Visual predictive check (VPC) for nlmixr nlme objects

VPC for nlmixr saemFit objects

VPC based on ui model

Warfarin PK/PD data