Package index

Processing model output

process_atl_output()

Creates post-processing output for Atlantis

process_catch_fleet()

Creates post-processing Catch output for Atlantis

get_atl_paramfiles()

Creates a dataframe of atlantis parameter files based on standard output

Plotting model output

make_atlantis_diagnostic_figures()

Creates standard diagnostic figures for Atlantis output

Diagnostic checks

diag_cohortBiomass()

Test for distribution of biomass over age class

diag_combine()

Combine all diagnostic output

diag_fleet_catch()

Test fleet catch

diag_maxsize()

Test for max fish size

diag_persistence()

Test for functional group persistence

diag_reasonability()

Test for functional group reasonability

diag_stability()

Test for functional group stability

Miscellaneous

compare_spatial_vars()

Creates post-processing output for Atlantis

atlantisdiagnostics atlantisdiagnostics-package

atlantisdiagnostics: Tools for calibrating Atlantis ecosystem models