transform_to_tmb_hierarchical

Transform simulation data to TMB hierarchical format

internal

An implementation of the 'Fish Bioenergetics 4.0' framework
described in Deslauriers et al. (2017)
<doi:10.1080/03632415.2017.1377558>. Provides automated parameter
optimization, multi-prey diet modeling, and comprehensive energy budget
simulations for fisheries research and aquaculture applications. An
optional 'TMB' (Template Model Builder) backend delivers 10-50x speedup
in maximum likelihood estimation while maintaining full backward
compatibility. Includes species-specific parameter databases and tools
for modeling fish growth, consumption, and metabolism under varying
environmental conditions.

Hans Ttito

fb4package

'Fish Bioenergetics 4.0' Model Implementation with
High-Performance 'TMB' Backend

transform_to_tmb_hierarchical function

<dl><dt>simulation_data</dt>
<dd>Processed simulation data</dd>
<dt>individual_data</dt>
<dd>Data frame with columns: individual_id, initial_weight and observed_weight</dd>
<dt>covariates</dt>
<dd>Optional covariate matrix or data frame or choose a column of individual_data</dd></dl>

Arguments

Transform simulation data to TMB hierarchical format — transform_to_tmb_hierarchical

<dl>

<dt>simulation_data</dt>
<dd>Processed simulation data</dd>


<dt>individual_data</dt>
<dd>Data frame with columns: individual_id, initial_weight and observed_weight</dd>


<dt>covariates</dt>
<dd>Optional covariate matrix or data frame or choose a column of individual_data</dd>

</dl>

transform_to_tmb_hierarchical: Transform simulation data to TMB hierarchical format

Description

Usage

Arguments