MNM-class

The <code>"MNM"</code> class represents a multi-species N-mixture model object fitted using Nimble.
It contains key model outputs, including parameter estimates, input data, predictions,
log-likelihood, convergence diagnostics, and model summaries.

Simulating data and fitting multi-species N-mixture models using 'nimble'. Includes features for handling zero-inflation and temporal correlation, Bayesian inference, model diagnostics, parameter estimation, and predictive checks. Designed for ecological studies with zero-altered or time-series data. Mimnagh, N., Parnell, A., Prado, E., & Moral, R. A. (2022) <doi:10.1007/s10651-022-00542-7>. Royle, J. A. (2004) <doi:10.1111/j.0006-341X.2004.00142.x>.

Niamh Mimnagh

MultiNMix

Multi-Species N-Mixture (MNM) Models with 'nimble'

Rafael de Andrade Moral

MNM-class function

<dl>
<dt><code>summary</code></dt>
<dd>A <code>data.frame</code> summarizing the model output, including posterior means, standard deviations, and convergence diagnostics (e.g., Rhat values).</dd></dl>
<dt><code>n_parameters</code></dt>
<dd>A numeric value indicating the number of parameters estimated in the model.</dd>
<dt><code>estimates</code></dt>
<dd>Mean estimates for all monitored parameters.</dd>
<dt><code>fitted_Y</code></dt>
<dd>An array containing the fitted values (predicted responses) for the model.</dd>
<dt><code>data</code></dt>
<dd>An array containing the input data used to fit the model.</dd>
<dt><code>logLik</code></dt>
<dd>A numeric value representing the log-likelihood of the model.</dd>
<dt><code>n_converged</code></dt>
<dd>A numeric value indicating the number of parameters with Rhat &lt; 1.1, showing convergence.</dd>
<dt><code>plot</code></dt>
<dd>A list containing traceplots and density plots for all monitored variables.</dd>

Slots

Multi-Species N-Mixture (MNM) Model Class — MNM-class

<dl>
<dt><code>summary</code></dt>
<dd>A <code>data.frame</code> summarizing the model output, including posterior means, standard deviations, and convergence diagnostics (e.g., Rhat values).</dd>


<dt><code>n_parameters</code></dt>
<dd>A numeric value indicating the number of parameters estimated in the model.</dd>


<dt><code>estimates</code></dt>
<dd>Mean estimates for all monitored parameters.</dd>


<dt><code>fitted_Y</code></dt>
<dd>An array containing the fitted values (predicted responses) for the model.</dd>


<dt><code>data</code></dt>
<dd>An array containing the input data used to fit the model.</dd>


<dt><code>logLik</code></dt>
<dd>A numeric value representing the log-likelihood of the model.</dd>


<dt><code>n_converged</code></dt>
<dd>A numeric value indicating the number of parameters with Rhat &lt; 1.1, showing convergence.</dd>


<dt><code>plot</code></dt>
<dd>A list containing traceplots and density plots for all monitored variables.</dd>


</dl>

MNM-class: Multi-Species N-Mixture (MNM) Model Class

Description

Arguments

Slots