API for xieshu95/Trait_dependent_TraiSIE
Dynamical Assembly of Islands by Speciation, Immigration and Extinction
| Global functions | |
|---|---|
| Add_brt_table | Source code |
| Biwa_datalist | Man page |
| DAISIE_ExpEIN | Man page Source code |
| DAISIE_KLdist | Source code |
| DAISIE_ML | Man page Source code |
| DAISIE_ML1 | Source code |
| DAISIE_ML2 | Source code |
| DAISIE_ML3 | Source code |
| DAISIE_ML_CS | Man page |
| DAISIE_ML_IW | Man page Source code |
| DAISIE_MW_ML | Man page Source code |
| DAISIE_MW_loglik_choosepar | Source code |
| DAISIE_ONEcolonist | Man page Source code |
| DAISIE_SR_ML | Man page Source code |
| DAISIE_SR_ML_CS | Man page |
| DAISIE_SR_loglik | Source code |
| DAISIE_SR_loglik_CS | Man page |
| DAISIE_SR_loglik_all | Man page Source code |
| DAISIE_SR_loglik_all_choosepar | Source code |
| DAISIE_SR_sim | Man page Source code |
| DAISIE_SR_sim_core | Source code |
| DAISIE_calc_clade_ana_rate | Man page Source code |
| DAISIE_calc_clade_clado_rate | Man page Source code |
| DAISIE_calc_clade_ext_rate | Man page Source code |
| DAISIE_calc_clade_imm_rate | Man page Source code |
| DAISIE_calc_sumstats_pcrates | Man page Source code |
| DAISIE_convert_to_classic_plot | Man page Source code |
| DAISIE_convertprobdist | Man page Source code |
| DAISIE_create_island | Man page Source code |
| DAISIE_create_island_trait | Source code |
| DAISIE_dataprep | Man page Source code |
| DAISIE_eq | Source code |
| DAISIE_extract_stt_median | Man page Source code |
| DAISIE_format_CS | Man page Source code |
| DAISIE_format_CS_trait | Source code |
| DAISIE_format_IW | Man page Source code |
| DAISIE_format_IW_trait | Source code |
| DAISIE_get_brts_mya | Man page Source code |
| DAISIE_integrate | Source code |
| DAISIE_integrate_const | Source code |
| DAISIE_integrate_time | Source code |
| DAISIE_loglik | Source code |
| DAISIE_loglik_CS | Man page |
| DAISIE_loglik_CS_choice | Source code |
| DAISIE_loglik_IW | Man page Source code |
| DAISIE_loglik_IW0 | Source code |
| DAISIE_loglik_IW0_choosepar | Source code |
| DAISIE_loglik_IW_M1 | Source code |
| DAISIE_loglik_IW_choosepar | Source code |
| DAISIE_loglik_all | Man page Source code |
| DAISIE_loglik_all_choosepar | Source code |
| DAISIE_loglik_all_choosepar2 | Source code |
| DAISIE_loglik_all_choosepar3 | Source code |
| DAISIE_loglik_high_lambda | Source code |
| DAISIE_loglik_rhs | Source code |
| DAISIE_loglik_rhs2 | Source code |
| DAISIE_loglik_rhs_IW | Source code |
| DAISIE_loglik_rhs_IW0 | Source code |
| DAISIE_loglik_rhs_precomp | Source code |
| DAISIE_loglik_rhs_time | Source code |
| DAISIE_loglik_rhs_time2 | Source code |
| DAISIE_make_archipelago | Source code |
| DAISIE_make_global | Source code |
| DAISIE_margprobdist | Man page Source code |
| DAISIE_numcol | Man page Source code |
| DAISIE_numcol_dist | Source code |
| DAISIE_ode_FORTRAN | Source code |
| DAISIE_plot_age_diversity | Man page Source code |
| DAISIE_plot_area | Man page Source code |
| DAISIE_plot_cladogenesis | Man page Source code |
| DAISIE_plot_comparison_stts | Man page Source code |
| DAISIE_plot_extinction | Man page Source code |
| DAISIE_plot_immigration | Man page Source code |
| DAISIE_plot_island | Man page |
| DAISIE_plot_pc_rates | Man page Source code |
| DAISIE_plot_sims | Man page Source code |
| DAISIE_plot_stt | Man page Source code |
| DAISIE_probdist | Man page Source code |
| DAISIE_probdist_rhs | Source code |
| DAISIE_sample_event | Man page Source code |
| DAISIE_sim | Man page Source code |
| DAISIE_sim_core | Man page Source code |
| DAISIE_sim_core_1_4 | Man page Source code |
| DAISIE_sim_core_checked | Man page Source code |
| DAISIE_sim_core_checked_1_4 | Man page Source code |
| DAISIE_sim_core_trait | Source code |
| DAISIE_sim_min_type2 | Source code |
| DAISIE_sim_update_state | Man page Source code |
| DAISIE_sim_update_state_trait | Source code |
| DAISIE_sim_with_mainland | Man page Source code |
| DAISIE_sim_with_ontogeny | Man page Source code |
| DAISIE_tutorial | Man page Source code |
| Galapagos_datalist | Man page |
| Galapagos_datalist_2types | Man page |
| Galapagos_datatable | Man page |
| ML_CS_store_params | Source code |
| Macaronesia_datalist | Man page |
| antidiagSums | Source code |
| are_area_params | Man page Source code |
| are_rates | Man page Source code Source code |
| are_trait_state_params | Man page Source code |
| bin2dec | Source code |
| calcMN | Source code |
| calc_next_timeval | Man page Source code |
| checkprobs | Source code |
| checkprobs2 | Source code |
| compare_diff | Man page Source code |
| compare_diff2 | Source code |
| countimmi | Source code |
| countspecies | Man page Source code |
| countspeciestype1 | Source code |
| countstac | Source code |
| counttype1 | Source code |
| create_area_params | Man page Source code |
| create_daisie_params | Man page Source code |
| create_rates | Man page Source code |
| create_test_daisie_params | Man page Source code |
| create_test_simulation_outputs | Man page Source code |
| create_test_trait_state_params | Source code |
| create_trait_state_params | Man page Source code |
| dec2bin | Source code |
| dec2binmat | Source code |
| default_params_doc | Man page Source code |
| divdepvec | Source code |
| divdepvec1 | Source code |
| divdepvec_time | Source code |
| divdepvecproc | Source code |
| f_sigmoidal_neg | Source code |
| f_sigmoidal_pos | Source code |
| fconstr13 | Source code |
| fconstr15 | Source code |
| get_ana_rate | Man page Source code |
| get_clado_rate | Man page Source code |
| get_ext_rate | Man page Source code |
| get_immig_rate | Man page Source code |
| get_t_hor | Man page Source code |
| get_trans_rate | Man page Source code |
| is.odd | Man page Source code |
| is_island_ontogeny_input | Man page Source code |
| is_island_ontogeny_runtime | Man page Source code |
| is_numeric_list | Man page Source code |
| is_simulation_outputs | Man page Source code |
| island_area | Man page Source code |
| island_area_vector | Man page Source code |
| islands_10reps_RAW | Man page |
| islands_1type_1000reps | Man page |
| islands_2types_1000reps | Man page |
| islands_sim_MLE | Source code |
| kimat | Source code |
| kmini | Source code |
| kmini0 | Source code |
| nndivdep | Source code |
| nndivdep0 | Source code |
| odeproc | Source code |
| order_pars1 | Source code |
| par_shift | Source code |
| quantiles | Source code |
| selectrows | Source code |
| shift_before_certain_brts | Source code |
| sim_with_estimated_pars | Source code |
| translate_island_ontogeny | Man page Source code |
| update_rates | Man page Source code |
| update_rates_trait | Source code |
