Files in sustainablefarms/msod

Multispecies Occupancy Detection Models

R/DS_residuals.R R/DS_residuals_raw.R R/EdetMackenzieBailey.R R/Edetperspecies.R R/Enum_compare.R R/RVofrandomselectRV.R R/apply_supplant_new_data.R R/as_list_format.R R/availmodeltypes.R R/bugsdataconversion.R R/calcspeciesprobs_singlesitetheta.R R/elpd_compare.R R/extend_detectionoccupancy.R R/fitjsodm2.R R/functionaldiversity.R R/get_draws_for_parameter.R R/likelihood.R R/likelihood_jsodm.R R/likelihood_jsodm_lv.R R/likelihood_jsodm_lv_sepexp.R R/model_quality_stats.R R/numspec_fulldistribution.R R/parameterinitialisation.R R/pdetection_occupied.R R/poccupancy.R R/prediction_summaries_jsodm_lv.R R/prepJAGSdata_nostandardising.R R/rmanybern.R R/rowprods_arr.R R/simulate_fit.R R/speciesrichness.R R/speciesrichness_diff.R R/speciesrichness_morelikelythannot.R R/supplant_with_new_data.R R/translate_fit_for_predict_only.R R/translate_param_names.R README.md ToDo.md inst/rmarkdown/templates/ModelAssessment/skeleton/skeleton.Rmd inst/rmarkdown/templates/basic/skeleton/skeleton.Rmd man/DunnSmythResiduals.Rd man/DunnSmythResidualsRaw.Rd man/Edetperspecies.jsodm.Rd man/Enum_compare.Rd man/apply_to_new_data.Rd man/artificial_runjags.Rd man/as_list_format.Rd man/bugsvar2array.Rd man/detectednumspec.Rd man/elpd.Rd man/elpd_compare.Rd man/extend.fit.Rd man/fd_pocc.Rd man/fitjsodm.Rd man/get_occ_b.Rd man/likelihood.jsodm.Rd man/likelihood.jsodm_lv.Rd man/likelihood.jsodm_lv_sepexp.Rd man/likelihood_LVvmarg_draw.jsodm_lv.Rd man/likelihood_LVvmarg_draw.jsodm_lv_sepexp.Rd man/likelihoods.fit.Rd man/mb_stat.Rd man/minimise_fit.jsodm_lv.Rd man/modelqualstats.Rd man/occspecrich_difference.Rd man/paraminits.Rd man/parnames.Rd man/pdet_occ_raw.jsodm.Rd man/pdet_occ_raw.jsodm_lv_re.Rd man/pdetection_occupied.ModelSite.theta.Rd man/pdetection_occupied_raw.Rd man/poccupancy_margotherspecies.jsodm_lv.Rd man/poccupy.Rd man/poccupy.jsodm_lv.Rd man/prednumsuccess.Rd man/predsumspeciesRV.Rd man/prepJAGSdata2.Rd man/rmanybern.Rd man/simulate_detections.Rd man/speciesrichness_mltn.Rd man/sumRV_margrow.Rd man/supplant_new_data.Rd tests/run_testthattests.R tests/testthat/_snaps/calcs_saved_fit.md tests/testthat/test-DS_residuals.R tests/testthat/test-bugsvar2array.R tests/testthat/test-calcs_saved_fit.R tests/testthat/test-expectedbiodiversity.R tests/testthat/test-fulldistribution_numspecies.R tests/testthat/test-likelihoods.R tests/testthat/test-predcalculations.R tests/testthat/test-simulationmethods.R tests/testthat/test-whole-identical-sites.R tests/testthat/test-whole-noiterations.R tests/testthat/test-whole-variety-nolv.R tests/testthat/test-whole-variety-wlv-60species.R tests/testthat/test-whole-variety-wlv.R