![](https://github.com/nlmixr2/nlmixr2est/raw/HEAD/logo.png)
nlmixr2est - Nonlinear Mixed Effects Models in Population PK/PD, Estimation Routines
Fit and compare nonlinear mixed-effects models in differential equations with flexible dosing information commonly seen in pharmacokinetics and pharmacodynamics (Almquist, Leander, and Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation solving is by compiled C code provided in the 'rxode2' package (Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Last updated 23 hours ago
7 stars 3.49 score 68 dependencies 8 dependents![](https://github.com/nlmixr2/nlmixr2/raw/HEAD/logo.png)
nlmixr2 - Nonlinear Mixed Effects Models in Population PK/PD
Fit and compare nonlinear mixed-effects models in differential equations with flexible dosing information commonly seen in pharmacokinetics and pharmacodynamics (Almquist, Leander, and Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation solving is by compiled C code provided in the 'rxode2' package (Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Last updated 2 months ago
37 stars 3.41 score 147 dependencies 2 dependentslbfgsb3c - Limited Memory BFGS Minimizer with Bounds on Parameters with optim() 'C' Interface
Interfacing to Nocedal et al. L-BFGS-B.3.0 (See <http://users.iems.northwestern.edu/~nocedal/lbfgsb.html>) limited memory BFGS minimizer with bounds on parameters. This is a fork of 'lbfgsb3'. This registers a 'R' compatible 'C' interface to L-BFGS-B.3.0 that uses the same function types and optimization as the optim() function (see writing 'R' extensions and source for details). This package also adds more stopping criteria as well as allowing the adjustment of more tolerances.
Last updated 17 days ago
3.26 score 3 dependencies 15 dependents![](https://github.com/nlmixr2/lotri/raw/HEAD/man/figures/logo.png)
lotri - A Simple Way to Specify Symmetric, Block Diagonal Matrices
Provides a simple mechanism to specify a symmetric block diagonal matrices (often used for covariance matrices). This is based on the domain specific language implemented in 'nlmixr2' but expanded to create matrices in R generally instead of specifying parts of matrices to estimate. It has expanded to include some matrix manipulation functions that are generally useful for 'rxode2' and 'nlmixr2'.
Last updated 8 days ago
4 stars 3.04 score 5 dependencies 12 dependentsrxode2ll - Log-Likelihood Functions for 'rxode2'
Provides the log-likelihoods with gradients from 'stan' (Carpenter et al (2015), <arXiv:1509.07164>) needed for generalized log-likelihood estimation in 'nlmixr2' (Fidler et al (2019) <doi:10.1002/psp4.12445>). This is split of to reduce computational burden of recompiling 'rxode2' (Wang, Hallow and James (2016) <doi:10.1002/psp4.12052>) which runs the 'nlmixr2' models during estimation.
Last updated 1 years ago
2 stars 2.77 score 7 dependencies 12 dependentsnlmixr2data - Nonlinear Mixed Effects Models in Population PK/PD, Data
Datasets for 'nlmixr2' and 'rxode2'. 'nlmixr2' is used for fitting and comparing nonlinear mixed-effects models in differential equations with flexible dosing information commonly seen in pharmacokinetics and pharmacodynamics (Almquist, Leander, and Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation solving is by compiled C code provided in the 'rxode2' package (Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Last updated 7 months ago
3 stars 2.61 score 0 dependencies 9 dependentsn1qn1 - Port of the 'Scilab' 'n1qn1' Module for Unconstrained BFGS Optimization
Provides 'Scilab' 'n1qn1'. This takes more memory than traditional L-BFGS. The n1qn1 routine is useful since it allows prespecification of a Hessian. If the Hessian is near enough the truth in optimization it can speed up the optimization problem. The algorithm is described in the 'Scilab' optimization documentation located at <https://www.scilab.org/sites/default/files/optimization_in_scilab.pdf>. This version uses manually modified code from 'f2c' to make this a C only binary.
Last updated 17 days ago
1 stars 2.42 score 2 dependencies 9 dependents![](https://github.com/nlmixr2/nlmixr2extra/raw/HEAD/logo.png)
nlmixr2extra - Nonlinear Mixed Effects Models in Population PK/PD, Extra Support Functions
Fit and compare nonlinear mixed-effects models in differential equations with flexible dosing information commonly seen in pharmacokinetics and pharmacodynamics (Almquist, Leander, and Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation solving is by compiled C code provided in the 'rxode2' package (Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>). This package is for support functions like preconditioned fits <doi:10.1208/s12248-016-9866-5>, boostrap and stepwise covariate selection.
Last updated 2 months ago
3 stars 2.14 score 77 dependencies 4 dependentsbabelmixr2 - Use 'nlmixr2' to Interact with Open Source and Commercial Software
Run other estimation and simulation software via the 'nlmixr2' (Fidler et al (2019) <doi:10.1002/psp4.12445>) interface including 'PKNCA', 'NONMEM' and 'Monolix'. While not required, you can get/install the 'lixoftConnectors' package in the 'Monolix' installation, as described at the following url <https://monolix.lixoft.com/monolix-api/lixoftconnectors_installation/>. When 'lixoftConnectors' is available, 'Monolix' can be run directly instead of setting up command line usage.
Last updated 7 hours ago
monolixnonmempharmacometrics
8 stars 1.92 score 153 dependencies![](https://github.com/nlmixr2/nlmixr2plot/raw/HEAD/logo.png)
nlmixr2plot - Nonlinear Mixed Effects Models in Population PK/PD, Plot Functions
Fit and compare nonlinear mixed-effects models in differential equations with flexible dosing information commonly seen in pharmacokinetics and pharmacodynamics (Almquist, Leander, and Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation solving is by compiled C code provided in the 'rxode2' package (Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>). This package is for 'ggplot2' plotting methods for 'nlmixr2' objects.
Last updated 2 months ago
2 stars 1.85 score 146 dependencies 3 dependents