Package: inlatools 0.0.3

Thierry Onkelinx

inlatools: Diagnostic Tools for INLA Models

Several functions which can be useful to choose sensible priors and diagnose the fitted model.

Authors:Thierry Onkelinx [aut, cre], Research Institute for Nature and Forest [cph, fnd]

inlatools_0.0.3.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
inlatools/json (API)

# Install 'inlatools' in R:
install.packages('inlatools', repos = c('https://inbo.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/inbo/inlatools/issues

Pkgdown/docs site:https://inbo.github.io

On CRAN:

Conda:

bayesian-statisticsgplv3inlamixed-modelsmodel-checkingmodel-validation

4.64 score 4 stars 73 scripts 26 exports 48 dependencies

Last updated from:e711776e83. Checks:8 OK, 1 ERROR. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK230
source / vignettesOK274
linux-releaseOK230
macos-releaseOK192
macos-oldrelERROR141
windows-develOK190
windows-releaseOK189
windows-oldrelOK185
wasm-releaseOK178

Exports:dgpoissondispersiondispersion_checkdistribution_checkfast_aggregation_checkfast_distribution_checkfittedgenerate_dataget_anomalyget_observedprec2sdresidualsrgpoissonrzanbinomrzapoisrzinbinomrzipoisselect_changeselect_divergenceselect_polyselect_quantilesimulate_iidsimulate_rwvar_nbinomvar_zinbinom1var_zipois1

Dependencies:assertthatclassclassIntclicpp11DBIdplyre1071farverfmeshergenericsggplot2gluegtableINLAisobandKernSmoothlabelinglatticelifecyclemagrittrMatrixMatrixModelspillarpkgconfigproxypurrrR6RColorBrewerRcpprlangs2S7scalessfspsplancsstringistringrtibbletidyrtidyselectunitsutf8vctrsviridisLitewithrwk

Checking the Distribution and Dispersion of a Model
Generate data | Overdispersion | Fitting the models | Distribution checks | Dispersion checks | Zero inflation | Underdispersion
Rendered fromdistribution.Rmdusingknitr::rmarkdown

Last update: 2022-09-14
Started: 2018-12-03

Getting a Grasp on the Random Walk Hyperparameter
1-D Random walks | Simulating random walks | Inspecting simulated random walks | Summarising and subsetting | Transformations | Centring
Rendered fromrwprior.Rmdusingknitr::rmarkdown

Last update: 2022-09-14
Started: 2019-03-08

Setting a Prior for the Random Intercept Variance and Fixed Effects
Simulating random intercepts | Inspecting simulated random intercepts | Link functions | Centring and quantiles | Priors for fixed effects
Rendered fromprior.Rmdusingknitr::rmarkdown

Last update: 2022-09-14
Started: 2018-12-03

Readme and manuals

Help Manual

Help pageTopics
The generalised Poisson distributiondgpoisson rgpoisson
Calculate a measure for dispersiondispersion
Use simulations to check for overdispersion or underdispersiondispersion_check dispersion_check,inla-method
Use simulations to compare the observed distribution with the modelled distributiondistribution_check distribution_check,inla-method
Fast aggregation check Compare the observed and modelled aggregated values.fast_aggregation_check fast_aggregation_check,inla-method
Use simulations to compare the observed distribution with the modelled distributionfast_distribution_check fast_distribution_check,inla-method fast_distribution_check,list-method
Extract the fitted values from an INLA modelfitted,inla-method
Generate dummy data with several distributionsgenerate_data
Get a set of anomalies of the modelget_anomaly get_anomaly,inla-method
get the observed values from the model objectget_observed
Plot the results from a dispersion checkplot.dispersion_check
Plot the results from a distribution checkplot.distribution_check
Plot Simulated Random Interceptsplot.sim_iid
Plot Simulated Random Walksplot.sim_rw
Convert the posterior marginal of a precision to a standard deviationprec2sd
Calculate the Residuals From an INLA Modelresiduals,inla-method
Zero altered negative binomialrzanbinom
Zero-altered Poissonrzapois
Zero inflated negative binomialrzinbinom
Zero-inflated Poissonrzipois
Select Fast Changing Simulations from an 'sim_rw' Objectselect_change
Select Diverging Simulations from an 'sim_rw' Objectselect_divergence
Select Random Walks Best Matching Some Polygon Coefficientsselect_poly
select the quantiles from an 'sim_rw' objectselect_quantile
simulate data from a second order random walksimulate_iid
simulate data from a second order random walksimulate_rw
Variance of the negative binomial distributionvar_nbinom var_zinbinom1 var_zipois1