matern_categorical

d_matern_categorical

From a matrix of locations and covariance parameters of the form
(variance, range, smoothness, category variance, nugget), return the square matrix of
all pairwise covariances.

Functions for fitting and doing predictions with
Gaussian process models using Vecchia's (1988) approximation.
Package also includes functions for reordering input locations,
finding ordered nearest neighbors (with help from 'FNN' package),
grouping operations, and conditional simulations.
Covariance functions for spatial and spatial-temporal data
on Euclidean domains and spheres are provided. The original
approximation is due to Vecchia (1988)
<http://www.jstor.org/stable/2345768>, and the reordering and
grouping methods are from Guinness (2018)
<doi:10.1080/00401706.2018.1437476>.
Model fitting employs a Fisher scoring algorithm described
in Guinness (2019) <doi:10.48550/arXiv.1905.08374>.

Joseph Guinness

GpGp

Fast Gaussian Process Computation Using Vecchia's Approximation

Matthias Katzfuss

Youssef Fahmy

matern_categorical function

<dl><dt>covparms</dt>
<dd>A vector with covariance parameters
in the form (variance, range, smoothness, category variance, nugget)</dd>
<dt>locs</dt>
<dd>A matrix with <code>n</code> rows and <code>d</code> columns.
Each row of locs gives a point in R^d.</dd></dl>

Arguments

<ul>
<li><code>d_matern_categorical()</code>: Derivatives of isotropic Matern covariance</li>
</ul>

Functions

The covariance parameter vector is (variance, range, smoothness, category variance, nugget)
= $(\sigma^2,\alpha,\nu,c^2,\tau^2)$, and the covariance function is parameterized
as
$$ M(x,y) = \sigma^2 2^{1-\nu}/\Gamma(\nu) (|| x - y ||/\alpha )^\nu K_\nu(|| x - y ||/\alpha ) $$
The nugget value $ \sigma^2 \tau^2 $ is added to the diagonal of the covariance matrix.
The category variance $c^2$ is added if two observation from same category
NOTE: the nugget is $ \sigma^2 \tau^2 $, not $ \tau^2 $.

Parameterization

Isotropic Matern covariance function with random effects for categories — matern_categorical

<dl>

<dt>covparms</dt>
<dd>A vector with covariance parameters
in the form (variance, range, smoothness, category variance, nugget)</dd>


<dt>locs</dt>
<dd>A matrix with <code>n</code> rows and <code>d</code> columns.
Each row of locs gives a point in R^d.</dd>

</dl>

The covariance parameter vector is (variance, range, smoothness, category variance, nugget)
= $(\sigma^2,\alpha,\nu,c^2,\tau^2)$, and the covariance function is parameterized
as
$$ M(x,y) = \sigma^2 2^{1-\nu}/\Gamma(\nu) (|| x - y ||/\alpha )^\nu K_\nu(|| x - y ||/\alpha ) $$
The nugget value $ \sigma^2 \tau^2 $ is added to the diagonal of the covariance matrix.
The category variance $c^2$ is added if two observation from same category
NOTE: the nugget is $ \sigma^2 \tau^2 $, not $ \tau^2 $.

matern_categorical: Isotropic Matern covariance function with random effects for categories

Description

Usage

Value

Arguments

Functions

Parameterization