Files in nmatzke/BioGeoBEARS
BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts
.DS_Store
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS
R/.DS_Store
R/BioGeoBEARS-package.R
R/BioGeoBEARS_SSEsim_makePlots_v1.R
R/BioGeoBEARS_SSEsim_v1.R
R/BioGeoBEARS_add_fossils_randomly_v1.R
R/BioGeoBEARS_basics_v1.R
R/BioGeoBEARS_calc_transition_matrices_v1.R
R/BioGeoBEARS_classes_v1.R
R/BioGeoBEARS_detection_v1.R
R/BioGeoBEARS_extract_Qmat_COOmat_v1.R
R/BioGeoBEARS_on_multiple_trees_v1.R
R/BioGeoBEARS_plots_v1.R
R/BioGeoBEARS_readwrite_v1.R
R/BioGeoBEARS_simulate_v1.R
R/BioGeoBEARS_stochastic_mapping_v1.R
R/BioGeoBEARS_stratified_v1.R
R/BioGeoBEARS_traits_v1.R
R/BioGeoBEARS_univ_model_v1.R
R/ChromoBEARS_v1.R
R/aa_generics_v1.R
R/aa_tree_basics_v1.R
R/calc_loglike_sp_v01.R
R/calc_uppass_probs_v1.R
R/get_stratified_subbranch_top_downpass_likelihoods_v1.R
R/matrix_utils_v1.R
R/runBSM_v1.R
R/stochastic_map_given_inputs.R
R/summarize_BSM_tables_v1.R
README.md
inst/.DS_Store
inst/CITATION
inst/extdata/.DS_Store
inst/extdata/Hawaii_abbreviations_table.txt
inst/extdata/Phylowiki_M0_2023_v1.R
inst/extdata/Phylowiki_M3_2023_v1.R
inst/extdata/Psychotria_5.2.newick
inst/extdata/Psychotria_5.2_old_not_ultrametric.newick
inst/extdata/Psychotria_5.2_ultrametric.newick
inst/extdata/Psychotria_controls_v1.txt
inst/extdata/Psychotria_detections_v1.txt
inst/extdata/Psychotria_geog.data
inst/extdata/Psychotria_geog_noAreaNames.data
inst/extdata/a_scripts/03_BGB_Psychotria_script_DECvDEC+J_wBSM_v1.R
inst/extdata/a_scripts/03_M1_Psychotria_maxareas2.R
inst/extdata/a_scripts/03_M2_Psychotria_dispersal_multipliers.R
inst/extdata/a_scripts/03_M3_Psychotria_time-strat_v2.R
inst/extdata/a_scripts/03_M4_Psychotria_distances.R
inst/extdata/a_scripts/BioGeoBEARS_LaplacesDemon_v1.R
inst/extdata/a_scripts/LRT_AIC_tables_v2.xlsx
inst/extdata/a_scripts/compare_LAGRANGE_w_BEARS_2param_v01.R
inst/extdata/a_scripts/per_area_probs_plot_v1.R
inst/extdata/a_scripts/plot_phylo3_nodecoords.R
inst/extdata/a_scripts/testrun.R
inst/extdata/examples/.DS_Store
inst/extdata/examples/395lab.zip
inst/extdata/examples/395lab/395_lab_setup_v1.R
inst/extdata/examples/395lab/Psychotria_M0_equalRates/Psychotria_M0_v1.R
inst/extdata/examples/395lab/Psychotria_M2_oneWayDispersal/Psychotria_M2_oneWayDispersal_v1.R
inst/extdata/examples/395lab/Psychotria_M4_DistanceDispersal/Psychotria_M4_DistanceDispersal_v1.R
inst/extdata/examples/395lab/Psychotria_slides_v1.pdf
inst/extdata/examples/395lab/conifer_DEC+x_traits_models/.Rapp.history
inst/extdata/examples/395lab/conifer_DEC+x_traits_models/conifer_DEC+x_traits_models_v1_makePDFs.R
inst/extdata/examples/395lab/conifer_DEC+x_traits_models/conifer_DEC+x_traits_models_v3.R
inst/extdata/examples/395lab/conifer_DEC+x_traits_models/geog.data
inst/extdata/examples/395lab/conifer_DEC+x_traits_models/geog_1area.data
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inst/extdata/examples/395lab/conifer_DEC+x_traits_models/modern_distances_subset.txt
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