Package index

Data

FIMS comes with a selection of built-in datasets that are used in examples to illustrate various visualization challenges.

data1

FIMS input data frame

Run FIMS

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_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_parameters() update_parameters()

Create default parameters for a FIMS model

initialize_data_distribution() initialize_process_distribution()

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 a slot in a FIMSFit object

is.FIMSFit()

Check if an object is of class FIMSFit

is.FIMSFits()

Check if an object is a list of FIMSFit objects

is_fims_verbose()

Should FIMS be verbose?

Package development

Primary functions used when developing FIMS package.

run_gtest()

Run the google test suite

setup_and_run_gtest()

Setup and run the google test suite

setup_gtest()

Set up your local environment to run the google tests locally

Ops(<Rcpp_Parameter>,<Rcpp_Parameter>) Ops(<Rcpp_Parameter>,<numeric>) Ops(<numeric>,<Rcpp_Parameter>) Ops(<Rcpp_ParameterVector>,<Rcpp_ParameterVector>) Ops(<Rcpp_ParameterVector>,<numeric>) Ops(<numeric>,<Rcpp_ParameterVector>) Math(<Rcpp_ParameterVector>)

Sets methods for operators under the S4 Generic Group, Ops

`[<-`(<Rcpp_ParameterVector>,<ANY>,<ANY>,<ANY>) `[`(<Rcpp_ParameterVector>,<numeric>,<ANY>,<ANY>) length(<Rcpp_ParameterVector>) sum(<Rcpp_ParameterVector>) dim(<Rcpp_ParameterVector>) Summary(<Rcpp_ParameterVector>)

Setter for Rcpp_ParameterVector