Package index • zoomss

Data

Data related functions and datasets

GroupInputs: Default functional groups for the ZooMSS model

getGroups(): Load default or custom functional groups for ZooMSS model

calculatePhytoParam(): Calculate phytoplankton abundance spectrum from chlorophyll data

createEnviroData(): Generate synthetic environmental data for ZooMSS testing

createInputParams(): Create input parameters data frame for ZooMSS model runs

validateGroups(): Validate ZooMSS functional groups data structure and values

Model Runs

Functions for running the model

zoomss_model(): Main ZooMSS model function for complete simulations

Plotting

Functions for plotting.

plotEnvironment(): Plot environmental forcing data

plotPPMR(): Visualize predator-prey mass ratio patterns in ZooMSS results

plotSizeSpectra(): Visualize abundance size spectra across functional groups

plotTimeSeries(): Unified function to visualize time series changes for different metrics

Data wrangling

Helper functions to convert units and data format

averageTimeSeries(): Calculate mean of final portion of ZooMSS time series

extractPPMR(): Calculate predator-prey mass ratio data for visualization

extractSizeRange(): Extract specific size class range from model variable

extractTrophicLevels(): Compute trophic levels for functional groups using diet composition

getBiomass(): Convert ZooMSS abundance matrices to biomass by multiplying by body weights

getGroups(): Load default or custom functional groups for ZooMSS model

reduceAll(): Aggregate abundances across all groups and size classes

reduceSize(): Aggregate ZooMSS abundances across all size classes

reduceSpecies(): Aggregate ZooMSS abundances across all species