generate_group_parameters: generate_group_parameters function

In jsgosnell/ratlantis: R package for developing, executing, and assessing Atlantis ecosystem models

Description

This function calculates the group values needed for Atlantis

Usage

generate_group_parameters(species_data_location = getwd(),
  species_info_groups_csv)

Arguments

species_data_location

where csv file with species data is located (defaults to working directory).

species_info_groups_csv

name of csv file with the following column headers (all provided by merging "gather" functions (gather_groups_for_species, gather_data_for_species, gather_habitat_for_species): Genus species family order class superclass phylum kingdom TL_final Data on depth associations, specifically min_depth max_depth Growth information, specifically mean_a mean_b mean_to mean_K mean_M max_length mean_Loo max_age atlantis_type classification for Atlantis group type. For Vertebrates, these can be fish bird mammal shark for invertebrates, see a long list at https://wiki.csiro.au/display/Atlantis/AtlantisGroupTypes group_name a name for the specific functional or focus group each organism belongs in; these are suggested by create_functional_groups but may need to be modified for readabilty (pick names you can remember and choose between!) group_code a 2 or 3-letter abbreviation for group_name

Details

This function uses provided information to Atlantis parameters for each functional group

jsgosnell/ratlantis documentation built on May 20, 2019, 2:08 a.m.