bru_inla.stack.mjoin

Helper functions for multi-likelihood models

internal

Facilitates spatial and general latent Gaussian modeling using
integrated nested Laplace approximation via the INLA package (<https://www.r-inla.org>).
Additionally, extends the GAM-like model class to more general nonlinear predictor
expressions, and implements a log Gaussian Cox process likelihood for
modeling univariate and spatial point processes based on ecological survey data.
Model components are specified with general inputs and mapping methods to the
latent variables, and the predictors are specified via general R expressions,
with separate expressions for each observation likelihood model in
multi-likelihood models. A prediction method based on fast Monte Carlo sampling
allows posterior prediction of general expressions of the latent variables.
Ecology-focused introduction in Bachl, Lindgren, Borchers, and Illian (2019)
<doi:10.1111/2041-210X.13168>.

Finn Lindgren

inlabru

Bayesian Latent Gaussian Modelling using INLA and Extensions

Fabian E. Bachl

David L. Borchers

Daniel Simpson

Lindesay Scott-Howard

Seaton Andy

Suen Man Ho

Roudier Pierre

Meehan Tim

Reddy Peddinenikalva Niharika

Perepolkin Dmytro

bru_inla.stack.mjoin function

<dl><dt>...</dt>
<dd>List of stacks that contain vector observations
(existing multi-likelihood observation matrices are also permitted)</dd>
<dt>compress</dt>
<dd>If <code>TRUE</code>, compress the model by removing duplicated rows of
effects, replacing the corresponding A-matrix columns with a single column
containing the sum.</dd>
<dt>remove.unused</dt>
<dd>If <code>TRUE</code>, compress the model by removing rows of
effects corresponding to all-zero columns in the A matrix (and removing those columns).</dd>
<dt>old.names</dt>
<dd>A vector of strings with the names of the observation
vector/matrix for each stack.
If a single string, this is assumed for all the stacks. (default "BRU.response")</dd>
<dt>new.name</dt>
<dd>The name to be used for the expanded observation matrix,
possibly the same as an old name. (default "BRU.response")</dd></dl>

Arguments

Join stacks intended to be run with different likelihoods — bru_inla.stack.mjoin

<dl>

<dt>...</dt>
<dd>List of stacks that contain vector observations
(existing multi-likelihood observation matrices are also permitted)</dd>


<dt>compress</dt>
<dd>If <code>TRUE</code>, compress the model by removing duplicated rows of
effects, replacing the corresponding A-matrix columns with a single column
containing the sum.</dd>


<dt>remove.unused</dt>
<dd>If <code>TRUE</code>, compress the model by removing rows of
effects corresponding to all-zero columns in the A matrix (and removing those columns).</dd>


<dt>old.names</dt>
<dd>A vector of strings with the names of the observation
vector/matrix for each stack.
If a single string, this is assumed for all the stacks. (default "BRU.response")</dd>


<dt>new.name</dt>
<dd>The name to be used for the expanded observation matrix,
possibly the same as an old name. (default "BRU.response")</dd>

</dl>

Join stacks intended to be run with different likelihoods

bru_inla.stack.mjoin: Join stacks intended to be run with different likelihoods

Description

Usage

Arguments