Files in nodeSub

Simulate DNA Alignments Using Node Substitutions

README.md R/RcppExports.R R/sim_normal_explicit.R R/calc_summary_statistics.R R/estimate_marginal_models.R R/create_equal_alignment_explicit.R R/sim_unlinked.R R/sim_unlinked_explicit.R R/sim_linked.R R/create_tree_from_brts.R R/infer_phylogeny.R R/util.R R/nodeSub.R R/calc_rel_contr_node_time.R R/sim_normal.R R/count_hidden.R R/create_equal_alignment.R inst/doc/substitution_models.Rmd inst/doc/substitution_models.R tests/testthat.R tests/testthat/test-calc_fraction.R tests/testthat/test-sim_normal.R tests/testthat/test-sim_unlinked_explicit.R tests/testthat/test-sum-stats.R tests/testthat/test-sim_unlinked.R tests/testthat/test-sim_normal_explicit.R tests/testthat/test-create_equal_alignment.R tests/testthat/test-sim_linked.R tests/testthat/test-substitution.R tests/testthat/test-relative_node_time.R tests/testthat/test-count_hidden.R vignettes/substitution_models.Rmd man/nodeSub-package.Rd man/calc_fraction.Rd man/calc_sum_stats.Rd man/slow_matrix.Rd man/sim_linked.Rd man/calc_required_node_time.Rd man/get_p_matrix.Rd man/create_equal_alignment_explicit.Rd man/sim_unlinked.Rd man/sim_normal.Rd man/create_equal_alignment.Rd man/sim_unlinked_explicit.Rd man/calc_expected_hidden_nodes.Rd man/infer_phylogeny.Rd man/reduce_tree.Rd man/create_unbalanced_tree.Rd man/count_hidden.Rd man/estimate_marginal_models.Rd man/create_balanced_tree.Rd man/sim_normal_explicit.Rd