birp_data

Constructs a 'birp_data' object from matrices of observed counts and corresponding efforts for a single method.

A Bayesian tool to test for population trends and changes in trends under arbitrary designs, including before-after (BA), control-intervention (CI) and before-after-control-intervention (BACI) designs commonly used to assess conservation impact. It infers changes in trends jointly from data obtained with multiple survey methods, as well as from limited and noisy data not necessarily collected in standardized ecological surveys. Observed counts can be modeled as following either a Poisson or a negative binomial model, and both deterministic and stochastic trend models are available. For more details on the model see Singer et al. (2025) <doi:10.1101/2025.01.08.631844>, and the file 'AUTHORS' for a list of copyright holders and contributors.

Madleina Caduff

birp

Testing for Population Trends Using Low-Cost Ecological Count
Data

Daniel Wegmann

Liam Singer

Raphael Eckel

Andreas Füglistaler

birp_data function

<dl><dt>counts</dt>
<dd>A matrix of observed counts (J locations × K timepoints). Each row corresponds to a location and each column to a timepoint.</dd>
<dt>efforts</dt>
<dd>A matrix of observation effort with the same dimensions as `counts`.</dd>
<dt>times</dt>
<dd>A vector of length K specifying the timepoints.</dd>
<dt>CI_groups</dt>
<dd>A vector of length J specifying the control-intervention (CI) group for each location. Defaults to a single group (`group_1`) if not provided.</dd>
<dt>location_names</dt>
<dd>Optional names for the locations. Defaults to `"Location_1"`, `"Location_2"`, etc.</dd></dl>

Arguments

Create a birp_data Object from Count and Effort Matrices — birp_data

<dl>

<dt>counts</dt>
<dd>A matrix of observed counts (J locations × K timepoints). Each row corresponds to a location and each column to a timepoint.</dd>


<dt>efforts</dt>
<dd>A matrix of observation effort with the same dimensions as `counts`.</dd>


<dt>times</dt>
<dd>A vector of length K specifying the timepoints.</dd>


<dt>CI_groups</dt>
<dd>A vector of length J specifying the control-intervention (CI) group for each location. Defaults to a single group (`group_1`) if not provided.</dd>


<dt>location_names</dt>
<dd>Optional names for the locations. Defaults to `"Location_1"`, `"Location_2"`, etc.</dd>

</dl>

birp_data: Create a birp_data Object from Count and Effort Matrices

Description

Usage

Value

Arguments

Examples