computeMPLElambda

This function computes the weight for the MPLE penalty of Moreno &amp; Lele (2010).

models

Fits hierarchical models of animal abundance and occurrence to data collected using survey methods such as point counts, site occupancy sampling, distance sampling, removal sampling, and double observer sampling. Parameters governing the state and observation processes can be modeled as functions of covariates. References: Kellner et al. (2023) <doi:10.1111/2041-210X.14123>, Fiske and Chandler (2011) <doi:10.18637/jss.v043.i10>.

Ken Kellner

unmarked

Models for Data from Unmarked Animals

Richard Chandler

Ian Fiske

David Miller

Andy Royle

Jeff Hostetler

Rebecca Hutchinson

Adam Smith

Lea Pautrel

Marc Kery

Mike Meredith

Auriel Fournier

Ariel Muldoon

Chris Baker

computeMPLElambda function

<dl> <dt>formula</dt>
<dd>Double right-hand side formula describing covariates of
 detection and occupancy in that order.</dd> <dt>data</dt>
<dd>An <code>unmarkedFrameOccu</code> object</dd> <dt>knownOcc</dt>
<dd>Vector of sites that are known to be occupied. These
 should be supplied as row numbers of the y matrix, eg, c(3,8) if
 sites 3 and 8 were known to be occupied a priori.</dd> <dt>starts</dt>
<dd>Vector of parameter starting values.</dd> <dt>method</dt>
<dd>Optimization method used by <code><a href="/link/optim?package=unmarked&version=1.4.3" data-mini-rdoc="unmarked::optim">optim</a></code>.</dd> <dt>engine</dt>
<dd>Either "C" or "R" to use fast C++ code or native R
 code during the optimization.</dd> </dl>

Arguments

Author

Compute the penalty weight for the MPLE penalized likelihood method — computeMPLElambda

<dl>

 <dt>formula</dt>
<dd>Double right-hand side formula describing covariates of
 detection and occupancy in that order.</dd>

 <dt>data</dt>
<dd>An <code>unmarkedFrameOccu</code> object</dd>

 <dt>knownOcc</dt>
<dd>Vector of sites that are known to be occupied. These
 should be supplied as row numbers of the y matrix, eg, c(3,8) if
 sites 3 and 8 were known to be occupied a priori.</dd>

 <dt>starts</dt>
<dd>Vector of parameter starting values.</dd>

 <dt>method</dt>
<dd>Optimization method used by <code><a href='https://rdrr.io/r/stats/optim.html'>optim</a></code>.</dd>

 <dt>engine</dt>
<dd>Either "C" or "R" to use fast C++ code or native R
 code during the optimization.</dd>

 </dl>

Compute the penalty weight for the MPLE penalized likelihood method

computeMPLElambda: Compute the penalty weight for the MPLE penalized likelihood method

Description

Usage

Value

Arguments

Author

Details

References

See Also