95f9adecc57e58d3c80fe1bb8c72947f *DESCRIPTION
d1b7c097da1547a15b3598164c1990ea *NAMESPACE
06398238902e9a2c5ab79bfd15f86719 *R/RcppExports.R
ed8def4ac5e6d82b8223dd637d81c61c *R/calc_rel_contr_node_time.R
c2fca8662071812be30aa3bd5ab97f7b *R/calc_summary_statistics.R
01368b905fa3d2146180fbdd6985e452 *R/count_hidden.R
92cd56bdc81097c65a0a0d7efb7c1fe5 *R/create_equal_alignment.R
c6db7b3966929436293f986880c7a7a3 *R/create_equal_alignment_explicit.R
f0acae2484f151d6c3850b9ffc7f748a *R/create_tree_from_brts.R
017e8b1bd87cce7453cceba34521e19d *R/estimate_marginal_models.R
bc0a200fc35f5bff892255c708218c04 *R/infer_phylogeny.R
c0b01b237c31667dd78e80b272302d04 *R/nodeSub.R
f7bb5eea31f5311ebacc2d5497dd3af6 *R/sim_linked.R
532ee47a0a8c628b167648cd54fee831 *R/sim_normal.R
a0798e05204d95ee3e4a13b611ebf36f *R/sim_normal_explicit.R
afc75eb28fe1f7c8a16efeab883704ba *R/sim_unlinked.R
06ed8dc5ebee0a6f3ac950d819d87552 *R/sim_unlinked_explicit.R
6a2779d18f5bf82df741c2277b49080d *R/util.R
37d42a89e3ce492d235fe2fff360d158 *README.md
ab61abe32df27dc95f7e38551e70bc16 *build/vignette.rds
791fc1a57b38595153bc0466cec0a096 *inst/doc/substitution_models.R
2bf1b79ca289175469b4c6b26774f6e2 *inst/doc/substitution_models.Rmd
640800d1c9ad7b702a99d252a3764f0e *inst/doc/substitution_models.html
9405b191aaf4eabe5408c36bf0d9f539 *inst/doc/workflow.R
5b4d55718aeb3d068a25150fcdfa0acd *inst/doc/workflow.Rmd
ea9706f387e7782df0ea0b71b7b4dd95 *inst/doc/workflow.html
9446ac9fc736caea9fed352363ee5966 *man/calc_expected_hidden_nodes.Rd
b7e1c4858fe732f30086c579f8c71d61 *man/calc_fraction.Rd
a95870152b1a8515918a3e13362c5cd1 *man/calc_required_node_time.Rd
2a0a976309533df8ec331fa139708d56 *man/calc_sum_stats.Rd
f37ef117e13890b80c06480c9b5bb3e7 *man/count_hidden.Rd
5c5ef9ba2607682aae7205a1316973c4 *man/create_balanced_tree.Rd
a38cd624fa7ae9747acf37fb8cf5fe9b *man/create_equal_alignment.Rd
a628d35b287c71566d007fe43935f713 *man/create_equal_alignment_explicit.Rd
968a1d1d492ebc08e1a28e1e0db4bc5c *man/create_unbalanced_tree.Rd
5edc06237f13ead458af4a80079c7bc0 *man/estimate_marginal_models.Rd
44f059eabdc355970242ad8f81e20f7e *man/get_p_matrix.Rd
73b9107db33a1b147ff3580f738b29e1 *man/infer_phylogeny.Rd
9be74f6e7d1449dfa4f3c1f9fbe74d08 *man/nodeSub-package.Rd
eff0878e0fc845480d700932b46f2765 *man/reduce_tree.Rd
0d63fca87dacb27dcddbe9637b00f6ac *man/sim_linked.Rd
5ef8866163be63af2d2dd0f530b00638 *man/sim_normal.Rd
dfd63d76a68d213edfdda14986f24fee *man/sim_normal_explicit.Rd
d593f9272815827b04296a08945b845e *man/sim_unlinked.Rd
be88eb66c4c179be142ed9c36a29d99f *man/sim_unlinked_explicit.Rd
69ebc02126c63583118176d270df5a69 *man/slow_matrix.Rd
62f108628677b8aea0695a5394428896 *src/Makevars
305a4533ae0564e530a79b3a1a016c80 *src/RcppExports.cpp
7c51f10e676aaf60d212f8f65f3176b4 *src/getP.cpp
e6e18fab06a45dbe469336f29b779e63 *tests/testthat.R
69628f8819476092a64273f5cc34db94 *tests/testthat/test-calc_fraction.R
f32af815b47047495dee685d5dcadbdc *tests/testthat/test-count_hidden.R
edffdafcdd7f77463ec0395669d0af39 *tests/testthat/test-create_equal_alignment.R
fe76b8a4401430dc01e4d60e45ea5cbf *tests/testthat/test-infer_phylogeny.R
cd3acf090f0c7ec10146e2263d8c4752 *tests/testthat/test-marginal.R
a5c74a42d72230841a2c2ce7d1dc3e8c *tests/testthat/test-relative_node_time.R
c9ddbf0f38224d989e426b9d651d0692 *tests/testthat/test-sim_linked.R
6c4a9384c8c8599db40db4e53a295b13 *tests/testthat/test-sim_normal.R
18e1a7b8b5029b1f14b306a2956c3666 *tests/testthat/test-sim_normal_explicit.R
2272c2de332a2fc2f3da978425c12133 *tests/testthat/test-sim_unlinked.R
0127d258ef1405fdc3425dba5e499986 *tests/testthat/test-sim_unlinked_explicit.R
33ef38d45b7ea5ea62823e793cb2bf7b *tests/testthat/test-substitution.R
c1b0ed6e03ac2357e8770867e2dbb8a3 *tests/testthat/test-sum-stats.R
2bf1b79ca289175469b4c6b26774f6e2 *vignettes/substitution_models.Rmd
5b4d55718aeb3d068a25150fcdfa0acd *vignettes/workflow.Rmd
