README.md

TMB_contrib_R

This repository contains user contributed R packages. Install with devtools:::install_github(...).

TMBhelper -- Dumping ground for useful contributed R functions

Includes

• AICTMB -- calculate AIC based on model output
• Check_Identifiable -- automatically check for non-identiable fixed effects

Install using

devtools::install_github("kaskr/TMB_contrib_R/TMBhelper")

TMBdebug -- Debugging tool for Windows users

• Designed to prevent crash in R terminal for windows users when the program overruns a vector or matrix
• Install using

devtools::install_github("kaskr/TMB_contrib_R/TMBdebug")

TMBphase -- Wrapper for fitting models in TMB with phases (a la ADMB)

• Designed to fit TMB models with phases, to allow sequential estimation of model parameters
• Install using

devtools::install_github("kaskr/TMB_contrib_R/TMBphase")

TMBtools -- Tools for developing R packages interfacing with TMB

Provides helper functions for creating packages which contain TMB source code such that:

• Size of compiled code for multiple TMB models is minimized

• The package can contain non TMB-related C++ source code, e.g., using Rcpp

• TMB compile chain has been cross-platform tested to pass R CMD --as-cran check

Install using

devtools::install_github("mlysy/TMBtools")

Please see quickstart instructions on project homepage.