Package index • FIMS

Data

Example dataset used in FIMS demonstrations and examples.

Primary functions used when setting up or running a FIMS model.

FIMSFrame(): Class constructors for FIMSFrame and associated child classes
get_data() get_fleets() get_n_fleets() get_n_years() get_start_year() get_end_year() get_ages() get_n_ages() get_lengths() get_n_lengths(): Get a slot in a FIMSFrame object
m_landings() m_index() m_agecomp() m_lengthcomp() m_weight_at_age() m_age_to_length_conversion(): Get a vector of data to be passed to a FIMS module from a FIMSFrame object
create_default_configurations(): Create a default FIMS configuration tibble
create_default_parameters(): Create default parameters for a FIMS model
initialize_data_distribution() initialize_process_distribution() initialize_process_structure(): Set up a new distribution for a data type or a process
lognormal() multinomial(): Distributions not available in the stats package
initialize_fims(): Initialize FIMS modules
FIMSFit(): Class constructors for class FIMSFit and associated child classes
fit_fims(): Fit a FIMS model (BETA)
get_input() get_report() get_obj() get_opt() get_max_gradient() get_sdreport() get_estimates() get_number_of_parameters() get_timing() get_version() get_model_output(): Get a slot in a FIMSFit object
is.FIMSFit(): Check if an object is of class FIMSFit
is_fims_verbose(): Should FIMS be verbose?

Primary functions used when developing FIMS package.

remove_test_data(): Remove test data
run_gtest(): Run the google test suite
run_r_integration_tests(): Run R integration tests
run_r_unit_tests(): Run R unit tests
setup_and_run_gtest(): Setup and run the google test suite
setup_gtest(): Set up your local environment to run the google tests locally
use_gtest_template(): Create tests/gtest/test_*.cpp test file and register it in CMakeLists.txt
use_testthat_template(): Create tests/testthat/test-*.R test file
reshape_json_estimates(): Reshape JSON estimates
reshape_tmb_estimates(): Reshape TMB estimates