mcmc_sum

MCMC_sum: A custom function for summarizing MCMC posterior sampling

Many bioacoustic data workflows rely on manual review (i.e.,
validation) of a subset of call files to provide information to statistical
models that account for misclassification by automated algorithms.
Because manual review can be prohibitively expensive, simulation can be a
valuable tool to aid the design of studies that use validation. This package
provides user-friendly functions to reduce the programming burden of
simulation studies that compare validation sampling designs. Simulations
assume the count-detection model, which is a realistic model for bioacoustic
data, especially for bats. For more information, see Oram et al. (2025)
<doi:10.1214/25-AOAS2096>.

Jacob Oram

ValidationExplorer

Simulation-Based Tools for Bioacoustic Study Design

Katharine Banner

Christian Stratton

Kathryn Irvine

mcmc_sum function

<dl><dt>out</dt>
<dd>Draws from a model fit using a probabilistic programming language
(e.g., Stan, NIMBLE or JAGS). The expected format of this input is a list,
where each entry is a Markov chain.</dd>
<dt>thin</dt>
<dd>An optional thinning interval.</dd>
<dt>truth</dt>
<dd>A vector with the true parameter values organized alphanumerically
by parameter value (e.g., lambda\[1\], lambda\[2\], psi\[1\], psi\[2\], theta\[1,1\],
theta\[1,2\], theta\[2,1\], theta\[2,2\])</dd></dl>

Arguments

MCMC_sum: A custom function for summarizing MCMC posterior sampling — mcmc_sum

<dl>

<dt>out</dt>
<dd>Draws from a model fit using a probabilistic programming language
(e.g., Stan, NIMBLE or JAGS). The expected format of this input is a list,
where each entry is a Markov chain.</dd>


<dt>thin</dt>
<dd>An optional thinning interval.</dd>


<dt>truth</dt>
<dd>A vector with the true parameter values organized alphanumerically
by parameter value (e.g., lambda\[1\], lambda\[2\], psi\[1\], psi\[2\], theta\[1,1\],
theta\[1,2\], theta\[2,1\], theta\[2,2\])</dd>

</dl>

mcmc_sum: MCMC_sum: A custom function for summarizing MCMC posterior sampling

Description

Usage

Value

Arguments

Examples