Files in TheoPannetier/DDvTDtools
Compare diversity-dependent (DD) and time-dependent (TD) diversification models
.Rbuildignore
.gitignore
.travis.yml
DDvTDtools.Rproj
DESCRIPTION
LICENSE
NAMESPACE
R/arg_init_k.R
R/arg_optim.R
R/arg_para.R
R/arg_sim.R
R/assert_DDvTD_wd.R
R/assert_init_k.R
R/assert_optim.R
R/assert_para.R
R/assert_sim.R
R/check_convergence_optim.R
R/check_init_pars.R
R/check_results.R
R/count_errors_logs.R
R/default_pars2_dd1.R
R/default_pars2_td4.R
R/fill_missing_rows.R
R/fix_indexing.R
R/format_optim_results_row.R
R/get_Kprime.R
R/get_brts.R
R/get_default_initpars.R
R/get_delta_aic.R
R/get_init_k.R
R/get_ltt_tbls.R
R/get_multi_brts.R
R/get_p_tbl.R
R/get_summary_ltt_tbl.R
R/join_optim_tbls.R
R/make_plot_title_expr.R
R/para_to_pars.R
R/params_doc.R
R/plot_avg_ltt.R
R/plot_lr.R
R/plot_ltt_nested.R
R/plot_n_distrib.R
R/read_optim_results.R
R/read_sim.R
R/read_sim_multiPhylo.R
R/results_optim_struct.R
R/run_optim.R
R/run_optim_empirical_sims.R
R/run_optim_from_n.R
R/run_sim.R
R/set_DDvTD_dir_struct.R
R/utils-pipe.R
README.html
README.md
man/arg_init_k.Rd
man/arg_optim.Rd
man/arg_para.Rd
man/arg_sim.Rd
man/assert_DDvTD_wd.Rd
man/assert_init_k.Rd
man/assert_optim.Rd
man/assert_para.Rd
man/assert_sim.Rd
man/check_convergence_optim.Rd
man/check_duplicated_rows.Rd
man/check_incomplete_rows.Rd
man/check_init_pars.Rd
man/check_loglikelihood_exists.Rd
man/check_missing_mcs.Rd
man/count_errors_log.Rd
man/default_pars2_dd1.Rd
man/default_pars2_td4.Rd
man/fill_missing_rows.Rd
man/fix_indexing.Rd
man/format_optim_results_row.Rd
man/get_Kprime.Rd
man/get_brts.Rd
man/get_default_initpars.Rd
man/get_delta_aic.Rd
man/get_init_k.Rd
man/get_ltt_tbls.Rd
man/get_multi_brts.Rd
man/get_p_tbl.Rd
man/get_summary_ltt_tbl.Rd
man/join_optim_tbls.Rd
man/para_to_pars.Rd
man/params_doc.Rd
man/pipe.Rd
man/plot_avg_ltt.Rd
man/plot_lr.Rd
man/plot_ltt_nested.Rd
man/plot_n_distrib.Rd
man/read_optim_results.Rd
man/read_sim.Rd
man/read_sim_multiPhylo.Rd
man/results_optim_struct.Rd
man/run_optim.Rd
man/run_optim_empirical_sims.Rd
man/run_optim_from_n.Rd
man/run_sim.Rd
man/set_DDvTD_dir_struct.Rd
scripts/README.md
scripts/install.sh
vignettes/.gitignore
vignettes/DDvTD/data/sim/simDD-1211.RData
vignettes/DDvTDtools.Rmd
vignettes/DDvTDtools.md
vignettes/example_dir/DDvTD/data/optim/simDD_optimDD_1211_true_k.rds
vignettes/example_dir/DDvTD/data/optim/simDD_optimTD_1211_true_k.rds
vignettes/example_dir/DDvTD/data/optim/simTD_optimDD_1211_true_k.rds
vignettes/example_dir/DDvTD/data/optim/simTD_optimTD_1211_true_k.rds
vignettes/example_dir/DDvTD/data/sim/simDD-1211.RData
vignettes/example_dir/DDvTD/data/sim/simTD-1211.RData
