Files in jkbest2/spatq

Use spatially varying catchability to standardize fishery-dependent data

CODE_OF_CONDUCT.md LICENSE.md R/diagnostics.R R/em_specs.R R/eval_sims.R R/field_plots.R R/file_paths.R R/fit_spatq.R R/inla_spde.R R/load_fits.R R/map_correlation.R R/pop_plots.R R/prepare_adfun.R R/prepare_data.R R/prepare_map.R R/prepare_pars.R R/prepare_random.R R/read_catchability.R R/save_fits.R R/setup.R R/spatq.R R/spatq_result.R R/specify_estimated.R R/studyspec.R R/utils.R R/verify_spatq.R README.md man/all_res_file_paths.Rd man/attach_optdiags.Rd man/bias_metric.Rd man/build_expr_str.Rd man/create_index_df.Rd man/dim_or_len.Rd man/domain_boundary.Rd man/em_estd.Rd man/em_subsample.Rd man/field_image.Rd man/fit_spatq.Rd man/fix_nlminb_fit.Rd man/fixpar_corr.Rd man/fixpar_corrplot.Rd man/fixpar_covcond.Rd man/fixpar_grad.Rd man/fixpar_highcorr.Rd man/fixpar_mgc.Rd man/fixpar_sd.Rd man/gather_nvec.Rd man/generate_aniso_fem.Rd man/generate_empty_projection.Rd man/generate_fem.Rd man/generate_mesh.Rd man/generate_projection.Rd man/get_coordref.Rd man/get_index_filetype.Rd man/get_newpars.Rd man/index_path.Rd man/init_fixef.Rd man/interleave_estgen.Rd man/is_estd_proc.Rd man/isgen.Rd man/layout_mat.Rd man/loc_grid.Rd man/make_sim_adfun.Rd man/map_correlation.Rd man/mgc.Rd man/new_spatq_setup.Rd man/nulleigs.Rd man/par_expr.Rd man/par_expr_parts.Rd man/pars_data.Rd man/pars_tau.Rd man/parse_coords.Rd man/plot_colorbar.Rd man/plot_field.Rd man/plot_popstate.Rd man/posdefhess.Rd man/prepare_adfun.Rd man/prepare_data.Rd man/prepare_map.Rd man/prepare_pars.Rd man/prepare_proc_switch.Rd man/prepare_random.Rd man/proc_colormap.Rd man/project_field.Rd man/rdata_path.Rd man/re_par_idx.Rd man/read_all_indices.Rd man/read_catch.Rd man/read_catchability.Rd man/read_estpop.Rd man/read_index.Rd man/read_index_csv.Rd man/read_popstate.Rd man/read_rdata.Rd man/repl_dir.Rd man/res_file_paths.Rd man/rescale_index.Rd man/rmse_metric.Rd man/save_fit.Rd man/save_index.Rd man/sim_file_paths.Rd man/spat_par_idx.Rd man/spatq.Rd man/spatq_fit.Rd man/spatq_obj.Rd man/spatq_optcontrol.Rd man/spatq_simsetup.Rd man/spatq_simstudyspec.Rd man/specify_estimated.Rd man/study_dir.Rd man/subsample_catch.Rd man/terminate_opt.Rd man/true_percentile.Rd man/update_onepar.Rd man/update_setup.Rd man/verify_ident_fixef.Rd man/verify_setequal.Rd man/verify_spatq.Rd man/verify_spatq_dims.Rd man/verify_spatq_map.Rd man/verify_spatq_names.Rd tests/testthat.R tests/testthat/helper-functionbuild.R tests/testthat/helper-spatq.R tests/testthat/test-diagnostics.R tests/testthat/test-setup.R tests/testthat/test-spatq.R tests/testthat/test-spatq_verify.R tests/testthat/test-utils.R