compute_R_inv

Compute SPDE matrices (F, G and GFinvG) and prior precision matrix for S

internal

Implements Bayesian brain mapping with population-derived priors,
including the original model described in Mejia et al. (2020)
<doi:10.1080/01621459.2019.1679638>, the model with spatial priors described
in Mejia et al. (2022) <doi:10.1080/10618600.2022.2104289>, and the model
with population-derived priors on functional connectivity described in Mejia
et al. (2025) <doi:10.1093/biostatistics/kxaf022>. Population-derived priors
are based on templates representing established brain network maps, for
example derived from independent component analysis (ICA), parcellations,
or other methods.  Model estimation is based on expectation-maximization or
variational Bayes algorithms. Includes direct support for 'CIFTI', 'GIFTI',
and 'NIFTI' neuroimaging file formats.

Amanda Mejia

BayesBrainMap

Estimate Brain Networks and Connectivity with Population-Derived
Priors

Damon Pham

Nohelia Da Silva

compute_R_inv function

<dl><dt>meshes</dt>
<dd><code>NULL</code> for spatial independence model, otherwise a list of
objects of class "BBM_mesh" containing the triangular mesh (see
<code>make_mesh</code>) for each brain structure.</dd>
<dt>kappa</dt>
<dd>Current estimates of SPDE parameter kappa for each latent field</dd>
<dt>C1</dt>
<dd>Constant, equal to \(1/(4*pi)\) for a 2-dimensional field with alpha=2</dd>
<dt>rm_extra</dt>
<dd>If <code>TRUE</code>. remove extra (non-data) vertices from the mesh for greater computational efficiency</dd></dl>

Arguments

Compute SPDE and prior precision matrices for S — compute_R_inv

<dl>

<dt>meshes</dt>
<dd><code>NULL</code> for spatial independence model, otherwise a list of
objects of class "BBM_mesh" containing the triangular mesh (see
<code>make_mesh</code>) for each brain structure.</dd>


<dt>kappa</dt>
<dd>Current estimates of SPDE parameter kappa for each latent field</dd>


<dt>C1</dt>
<dd>Constant, equal to \(1/(4*pi)\) for a 2-dimensional field with alpha=2</dd>


<dt>rm_extra</dt>
<dd>If <code>TRUE</code>. remove extra (non-data) vertices from the mesh for greater computational efficiency</dd>

</dl>

compute_R_inv: Compute SPDE and prior precision matrices for S

Description

Usage

Value

Arguments