import.seals

Generate <code>Spatial</code> objects from raw seal pup survey data (not inlcuded in
inlabru). Note that this function
will only extract one of the survey transects.

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

import.seals function

<dl><dt>sealfile</dt>
<dd>Character pointing to the file containing the seal counts and photo locations</dd>
<dt>icefile</dt>
<dd>Character pointing to the .tif file containing the ice sheet covariate</dd></dl>

Arguments

Fabian E. Bachl <a href="/link/bachlfab%40gmail.com?package=inlabru&version=2.8.0" data-mini-rdoc="inlabru::bachlfab@gmail.com">bachlfab@gmail.com</a>
Load seal data
Turn seal data into spatial object
To avoid confusion I remove the x-y coordinates created by Martin
Change CRS
Select a strip
Add total number of seals
Build a mesh. This mesh will be fine at the photo locations but coarse elsewhere
Let's plot the observed counts
Ice Covariate
Interpolate ice covariate
Add band1 covariate to seals data frame
Plot seal count and ice together
Create a data set

Author

Seal pup edata import — import.seals

<dl>

<dt>sealfile</dt>
<dd>Character pointing to the file containing the seal counts and photo locations</dd>


<dt>icefile</dt>
<dd>Character pointing to the .tif file containing the ice sheet covariate</dd>

</dl>

Fabian E. Bachl <a href='mailto:bachlfab@gmail.com'>bachlfab@gmail.com</a>
Load seal data
Turn seal data into spatial object
To avoid confusion I remove the x-y coordinates created by Martin
Change CRS
Select a strip
Add total number of seals
Build a mesh. This mesh will be fine at the photo locations but coarse elsewhere
Let's plot the observed counts
Ice Covariate
Interpolate ice covariate
Add band1 covariate to seals data frame
Plot seal count and ice together
Create a data set

import.seals: Seal pup edata import

Description

Usage

Value

Arguments

Author