@mattfidler mattfidler released this Sep 18, 2018 · 41 commits to master since this release

Assets 2
Update DESCRIPTION

Version bump

@mattfidler mattfidler released this Sep 7, 2018 · 61 commits to master since this release

Assets 3

A comprehensive collection of non-linear mixed effect (nlme) model algorithms:

  • First Order Estimation (FO) with FOCE post-hoc etas
## eg
nlmixr(modelfn, data, "fo"); # has FOCE post-hoc ETAs
  • First Order Estimation (FO) with FOCEi post-hoc ETAs
## eg
nlmixr(modelfn, data, "foi"); # has FOCEi post-hoc ETAs
  • First Order Conditional Estimate (FOCE)
## eg
nlmixr(modelfn, data, "foce");
  • First Order Conditional Estimate with interaction (FOCEi),
## eg
nlmixr(modelfn, data, "focei");
  • Adaptive Gaussian quadrature (with Laplacian approximation as a special case see glmm and glmm2),
  • Stochastic Approximation Estimation-Maximization (SAEM).
## eg
nlmixr(modelfn, data, "saem")
  • Traditional R nlme
## eg
nlmixr(modelfn, data, "nlme")

Other features

  • A minimalist, intuitive, expressive, and domain-specific nlme modeling language.
  • The capability of joint modeling of multiple endpoints.
  • A revamped SAEM engine with improved speed and stability.
  • The capability of out-of-box Visual Predictive Checks (VPC) after a model fit.
  • The capability of out-of-box sophisticated Clinical Trial Simulation (CTS) after a model fit.
  • The capability of an out-of-box comprehensive diagnostic kit with a direct hook to xpose after a model fit.
  • The capability of modeling “odd type” data, including binary data, count data, and bounded clinical endpoint (e.g., ADAS-cog has a range of 0 to 70).
  • Parallel computing ODE solving via the openmp package -- an industry's first among the current population PK/PD simulators to the best of our knowledge.
  • An intuitive, powerful, graphic user interface (GUI) based project manager in shinyMixR.

New in this release

This added a few things

  • fo and foi estimation routines
  • Multiple endpoint UI support:
  • SAEM bugfix
## Error in model block
## cp1 is modeled by additive error for compartment depot
cp1 ~ add(add.err1) | depot
cp2 ~ add(add.err2) | central

@mattfidler mattfidler released this Sep 7, 2018 · 64 commits to master since this release

Assets 2

A comprehensive collection of non-linear mixed effect (nlme) model algorithms:

  • First Order Estimation (FO) with FOCE post-hoc etas
## eg
nlmixr(modelfn, data, "fo"); # has FOCE post-hoc ETAs
  • First Order Estimation (FO) with FOCEi post-hoc ETAs
## eg
nlmixr(modelfn, data, "foi"); # has FOCEi post-hoc ETAs
  • First Order Conditional Estimate (FOCE)
## eg
nlmixr(modelfn, data, "foce");
  • First Order Conditional Estimate with interaction (FOCEi),
## eg
nlmixr(modelfn, data, "focei");
  • Adaptive Gaussian quadrature (with Laplacian approximation as a special case see glmm and glmm2),
  • Stochastic Approximation Estimation-Maximization (SAEM).
## eg
nlmixr(modelfn, data, "saem")
  • Traditional R nlme
## eg
nlmixr(modelfn, data, "nlme")

Other features

  • A minimalist, intuitive, expressive, and domain-specific nlme modeling language.
  • The capability of joint modeling of multiple endpoints.
    -c A revamped SAEM engine with improved speed and stability.
  • The capability of out-of-box Visual Predictive Checks (VPC) after a model fit.
  • The capability of out-of-box sophisticated Clinical Trial Simulation (CTS) after a model fit.
  • The capability of an out-of-box comprehensive diagnostic kit with a direct hook to xpose after a model fit.
  • The capability of modeling “odd type” data, including binary data, count data, and bounded clinical endpoint (e.g., ADAS-cog has a range of 0 to 70).
  • Parallel computing ODE solving via the openmp package -- an industry's first among the current population PK/PD simulators to the best of our knowledge.
  • An intuitive, powerful, graphic user interface (GUI) based project manager in shinyMixR.

New in this release

This added a few things

  • fo and foi estimation routines
  • Multiple endpoint UI support:
## Error in model block
## cp1 is modeled by additive error for compartment depot
cp1 ~ add(add.err1) | depot
cp2 ~ add(add.err2) | central

@mattfidler mattfidler released this Aug 30, 2018 · 82 commits to master since this release

Assets 4

A comprehensive collection of non-linear mixed effect (nlme) model algorithms:

  • First Order Conditional Estimate (FOCE)
## eg
nlmixr(modelfn, data, "foce");
  • First Order Conditional Estimate with interaction (FOCEi),
## eg
nlmixr(modelfn, data, "focei");
  • Adaptive Gaussian quadrature (with Laplacian approximation as a special case see glmm and glmm2),
  • Stochastic Approximation Estimation-Maximization (SAEM).
## eg
nlmixr(modelfn, data, "saem")
  • Traditional R nlme
## eg
nlmixr(modelfn, data, "nlme")

Other features

  • A minimalist, intuitive, expressive, and domain-specific nlme modeling language.
  • The capability of joint modeling of multiple endpoints.
  • A revamped SAEM engine with improved speed and stability.
  • The capability of out-of-box Visual Predictive Checks (VPC) after a model fit.
  • The capability of out-of-box sophisticated Clinical Trial Simulation (CTS) after a model fit.
  • The capability of an out-of-box comprehensive diagnostic kit with a direct hook to xpose after a model fit.
  • The capability of modeling “odd type” data, including binary data, count data, and bounded clinical endpoint (e.g., ADAS-cog has a range of 0 to 70).
  • Parallel computing ODE solving via the openmp package -- an industry's first among the current population PK/PD simulators to the best of our knowledge.
  • An intuitive, powerful, graphic user interface (GUI) based project manager in shinyMixR.

New in this release

This addresses a few stablitily fixes in the last release

  • SAEM FOCEi objective function was fixed
  • Standard Errors on FOCEi are more reasonable

@mattfidler mattfidler released this Aug 26, 2018 · 89 commits to master since this release

Assets 4

A comprehensive collection of non-linear mixed effect (nlme) model algorithms:

  • First Order Conditional Estimate (FOCE)
## eg
nlmixr(modelfn, data, "foce");
  • First Order Conditional Estimate with interaction (FOCEi),
## eg
nlmixr(modelfn, data, "focei");
  • Adaptive Gaussian quadrature (with Laplacian approximation as a special case see glmm and glmm2),
  • Stochastic Approximation Estimation-Maximization (SAEM).
## eg
nlmixr(modelfn, data, "saem")
  • Traditional R nlme
## eg
nlmixr(modelfn, data, "nlme")

Other features

  • A minimalist, intuitive, expressive, and domain-specific nlme modeling language.
  • The capability of joint modeling of multiple endpoints.
  • A revamped SAEM engine with improved speed and stability.
  • The capability of out-of-box Visual Predictive Checks (VPC) after a model fit.
  • The capability of out-of-box sophisticated Clinical Trial Simulation (CTS) after a model fit.
  • The capability of an out-of-box comprehensive diagnostic kit with a direct hook to xpose after a model fit.
  • The capability of modeling “odd type” data, including binary data, count data, and bounded clinical endpoint (e.g., ADAS-cog has a range of 0 to 70).
  • Parallel computing ODE solving via the openmp package -- an industry's first among the current population PK/PD simulators to the best of our knowledge.
  • An intuitive, powerful, graphic user interface (GUI) based project manager in shinyMixR.

@mattfidler mattfidler released this Aug 25, 2018 · 93 commits to master since this release

Assets 2

First major release

A comprehensive collection of non-linear mixed effect (nlme) model algorithms:

  • First Order Conditional Estimate (FOCE)
## eg
nlmixr(modelfn, data, "focei", control=foceiControl(interaction=FALSE));
  • First Order Conditional Estimate with interaction (FOCEi),
## eg
nlmixr(modelfn, data, "focei");
  • Adaptive Gaussian quadrature (with Laplacian approximation as a special case see glmm and glmm2),
  • Stochastic Approximation Estimation-Maximization (SAEM).
## eg
nlmixr(modelfn, data, "saem")
  • Traditional R nlme
## eg
nlmixr(modelfn, data, "nlme")

Other features

  • A minimalist, intuitive, expressive, and domain-specific nlme modeling language.
  • The capability of joint modeling of multiple endpoints.
  • A revamped SAEM engine with improved speed and stability.
  • The capability of out-of-box Visual Predictive Checks (VPC) after a model fit.
  • The capability of out-of-box sophisticated Clinical Trial Simulation (CTS) after a model fit.
  • The capability of an out-of-box comprehensive diagnostic kit with a direct hook to xpose after a model fit.
  • The capability of modeling “odd type” data, including binary data, count data, and bounded clinical endpoint (e.g., ADAS-cog has a range of 0 to 70).
  • Parallel computing ODE solving via the openmp package -- an industry's first among the current population PK/PD simulators to the best of our knowledge.
  • An intuitive, powerful, graphic user interface (GUI) based project manager in shinyMixR.
May 19, 2018
Fix vpc for rcheck