The inlatools package

Rationale

The inlatools package provides a set of function which can be useful to diagnose INLA models.

• calculate Pearson residuals
• simulation based checks for over- or underdispersion
• simulation based checks for the distribution
• visualise the effect of the variance or precision on random effects
  • random intercept
  • first order random walk
  • second order random walk

Installation

ip <- rownames(installed.packages())
if (!"remotes" %in% ip) {
  install.packages("remotes")
}
if (!"INLA" %in% ip) {
  install.packages(
    "INLA", 
    repos = c(getOption("repos"), "https://inla.r-inla-download.org/R/stable")
  )
}
# remotes::install_github("inbo/inlatools")
install.packages("inlatools", repos = c('https://inbo.r-universe.dev', 'https://cloud.r-project.org'))

Documentation

All documentation is available at the package website: https://inlatools.netlify.app. This website contains an overview of all available functions. Click on the name the function to open the corresponding help file. The vignettes illustrate

• how to check the dispersion
• how to check the distribution and
• how to visualise random effects for a given variance or precision.

Folder structure

• R: The source scripts of the R functions with documentation in Roxygen format
• man: The helpfile in Rd format
• test: unit tests using the testthat framework
• vignettes: the source code of the vignettes

inlatools
├── man
├── R
├─┬ tests
│ └── testthat
└── vignettes