Files in ss3sim
Fisheries Stock Assessment Simulation Testing with Stock Synthesis
MD5
NEWS.md
.Rinstignore
LICENSE
DESCRIPTION
README.md
NAMESPACE
inst/CITATION
inst/doc/introduction.R
inst/doc/introduction.Rmd
inst/doc/modifying-models.html
inst/doc/making-models.html
inst/doc/making-models.Rmd
inst/doc/modifying-models.Rmd
inst/doc/introduction.html
inst/extdata/example-om/ss3_exp_vals_comps.dat
inst/extdata/example-om/ss3_expected_values.dat
inst/extdata/change_f/ss3.par
inst/extdata/models/cod-om/codOM.ctl
inst/extdata/models/cod-om/forecast.ss
inst/extdata/models/cod-om/codOM.dat
inst/extdata/models/cod-om/starter.ss
inst/extdata/models/cod-em/codEM.ctl
inst/extdata/models/cod-em/forecast.ss
inst/extdata/models/cod-em/starter.ss
inst/extdata/eg-cases/index100-cod.txt
inst/extdata/eg-cases/tail_compression0-cod.txt
inst/extdata/eg-cases/agecomp0-cod.txt
inst/extdata/eg-cases/agecomp1-cod.txt
inst/extdata/eg-cases/E1-cod.txt
inst/extdata/eg-cases/M0-cod.txt
inst/extdata/eg-cases/index0-cod.txt
inst/extdata/eg-cases/G0-cod.txt
inst/extdata/eg-cases/F0-cod.txt
inst/extdata/eg-cases/E101-cod.txt
inst/extdata/eg-cases/tail_compression1-cod.txt
inst/extdata/eg-cases/O0-cod.txt
inst/extdata/eg-cases/S0-cod.txt
inst/extdata/eg-cases/E100-cod.txt
inst/extdata/eg-cases/retro0-cod.txt
inst/extdata/eg-cases/E0-cod.txt
inst/extdata/eg-cases/lcomp1-cod.txt
inst/extdata/eg-cases/calcomp0-cod.txt
inst/extdata/eg-cases/lcomp0-cod.txt
inst/extdata/eg-cases/index1-cod.txt
inst/extdata/eg-cases/F1-cod.txt
inst/extdata/eg-cases/retro1-cod.txt
vignettes/introduction.Rmd
vignettes/cjfas.csl
vignettes/filestructure.png
vignettes/refs.bib
vignettes/making-models.Rmd
vignettes/modifying-models.Rmd
R/verify_input.r
R/sample_comp.R
R/change_f_par.r
R/copy_ss3models.r
R/get_sigma.r
R/sample_index.r
R/change_o.R
R/sample_calcomp.R
R/change_data.r
R/setup_parallel.r
R/sample_agecomp.R
R/fill_across.r
R/change_q.R
R/get_bin_info.r
R/ts_dat.r
R/clean_data.r
R/case-parsing.r
R/profile_fmsy.r
R/get-results.r
R/change_em_binning.r
R/run_ss3sim.r
R/expand_scenarios.r
R/change_rec_devs_par.r
R/run_ss3model.r
R/ss3sim.r
R/change_e.r
R/change_f.r
R/create_argfiles.r
R/case-write.R
R/change_retro.r
R/standardize_bounds.R
R/change_lcomp_constant.R
R/get_fish600_casefolder.r
R/add_colnames.R
R/get_bin.R
R/make_dummy_data.r
R/sample_wtatage.R
R/change_rec_devs.r
R/sample_mlacomp.R
R/cleanup_ss3.r
R/get_model_folder.r
R/ss3sim_base.r
R/change_tail_compression.R
R/add_nulls.R
R/calculate_re.R
R/change_tv.r
R/plot_functions.R
R/sample_lcomp.R
R/get_ss_version.R
R/growth_estimation.R
R/scalar_dat.r
R/get_recdevs.r
man/add_nulls.Rd
man/standardize_bounds.Rd
man/change_em_binning.Rd
man/get_results_scalar.Rd
man/scalar_dat.Rd
man/add_colnames.Rd
man/sample_agecomp.Rd
man/sample_index.Rd
man/substr_r.Rd
man/run_ss3sim.Rd
man/get_bin_info.Rd
man/check_data_str_range.Rd
man/plot_scalar_boxplot.Rd
man/change_o.Rd
man/create_argfiles.Rd
man/get_bin.Rd
man/case_fishing.Rd
man/sample_calcomp.Rd
man/get_caseargs.Rd
man/get_results_timeseries.Rd
man/remove_CPUE.Rd
man/verify_plot_arguments.Rd
man/profile_fmsy.Rd
man/change_e_fcast_yrs.Rd
man/case_index.Rd
man/sample_mlacomp.Rd
man/change_lcomp_constant.Rd
man/change_e.Rd
man/get_caseval.Rd
man/sample_comp.Rd
man/plot_ts_points.Rd
man/cleanup_ss3.Rd
man/get_nll_components.Rd
man/id_scenarios.Rd
man/change_data.Rd
man/sample_lcomp.Rd
man/get_results_scenario.Rd
man/clean_data.Rd
man/calculate_data_units.Rd
man/get_ss_ver_dl.Rd
man/facet_form.Rd
man/add_tv_parlines.Rd
man/plot_scalar_points.Rd
man/plot_ts_boxplot.Rd
man/change_retro.Rd
man/verify_input.Rd
man/vbgf_func.Rd
man/get_recdevs.Rd
man/change_tv.Rd
man/check_data.Rd
man/get_model_folder.Rd
man/ss3sim.Rd
man/remove_q_ctl.Rd
man/add_CPUE.Rd
man/run_ss3model.Rd
man/fill_across.Rd
man/calculate_re.Rd
man/change_f_par.Rd
man/case_deparse.Rd
man/get_sigmar.Rd
man/expand_scenarios.Rd
man/get_fish600_casefolder.Rd
man/copy_ss3models.Rd
man/get_args.Rd
man/rename_ss3_files.Rd
man/sample_wtatage.Rd
man/sanitize_admb_options.Rd
man/case_tv.Rd
man/change_pop_bin.Rd
man/change_tail_compression.Rd
man/setup_parallel.Rd
man/case_comp.Rd
man/change_rec_devs.Rd
man/get_results_derived.Rd
man/ts_dat.Rd
man/get_results_all.Rd
man/change_rec_devs_par.Rd
man/change_f.Rd
man/plot_ts_lines.Rd
man/get_ss_ver_file.Rd
man/ss3sim_base.Rd
build/vignette.rds
data/scalar_dat.rda
data/ts_dat.rda
