fb7938775af75d111c563a6372570afb *DESCRIPTION
e30f9a4aeac462891b3b1e1984e62094 *LICENSE
08d474c45ecf47c090f0cbd17c5c11d5 *NAMESPACE
4ea2e725f0bc13544895316dc6c2370b *NEWS.md
9096d11e811951557b29279bd76eee73 *R/Gibbs_lcm.R
e2626e7ce3a644ca8cc0bebc2a14b218 *R/MH_tree.R
87406dc76696fae70e66ba79c9509367 *R/data.R
74600ca095bf166d6712c7f15852eb80 *R/ddtlcm-package.R
624d9d4aa743d4ad2df7d07e23be532e *R/ddtlcm_fit.R
af967a993c19fcb2d0188ccb542604f2 *R/initialization.R
8b8623c6c5dfa23ea1ed390d8824a299 *R/loglikehoods.R
94baa4e8051960227e5358f6d9ac0b2c *R/plot_functions.R
84049640a34299ebd6e57d31cb71b825 *R/predict.R
86a83d1a55b8a5d59b3e6b877bbe62b5 *R/print_functions.R
bf15fc2402e76807a064c6fdf82e8a80 *R/simulate_DDT_functions.R
d91baf2ff86a5b73eec336d7fb392b84 *R/summary_functions.R
3a1675ae57d540c45aba31cf33e34b7c *R/utils.R
ffda651573e777ff75f5ee14e90c2c6d *README.md
3a2d6d085cb655333888a3b6d762ed94 *build/vignette.rds
c2e907cd097bb5dd2b74b0c6355a48ab *data/data_synthetic.RData
09aef91dde89a56a92fdfe2a67cfc19d *data/parameter_diet.RData
2d1725a4ae9bbf39c40aa388e16fd0d2 *data/result_diet_1000iters.RData
ccff4521e2fe4e33439951ad6afe714a *inst/ddtlcm_output_example.pdf
24c41c52a2e1c16e496e5ac302159791 *inst/ddtlcm_output_example.png
60601cba50af6e6ac9f21960d1c53d08 *inst/doc/ddtlcm-demo.R
7e09bfe5083400a0baa9b2d888fddc72 *inst/doc/ddtlcm-demo.Rmd
4abd70c7c38b9881d06f31475e8a8103 *inst/doc/ddtlcm-demo.html
3a75cecac1b4406a2881accda4108703 *man/H_n.Rd
e11cba963ec0accd610da518bbc8a534 *man/J_n.Rd
7b3c14f15eaa72d5fdf22e84cd372f00 *man/WAIC.Rd
9d85eb843eee37d8cc1cdb7f4dc00e18 *man/a_t_one.Rd
8156119b2923e546fd5ad6e8ba82170d *man/a_t_two.Rd
5c8741ec8866f17b5ae3affe37330d59 *man/add_leaf_branch.Rd
f50067607c2b7ba1238e12d06e2933d5 *man/add_multichotomous_tip.Rd
ec6489114c0113cfd8c5c9e29d6bf228 *man/add_one_sample.Rd
d2b65e806471c08265f1f14022978c00 *man/add_root.Rd
6529b0a8e48ef04c6345c326a083e65f *man/attach_subtree.Rd
6ddc5d7e29f3bc1ea1c907e4b3f931d1 *man/compute_IC.Rd
8300dd1838cac6aced38a65e2bea35d3 *man/create_leaf_cor_matrix.Rd
0a8e6b63051829fcab83234ec556bdee *man/data_synthetic.Rd
e3f76f1b71c5ff4a1cba351d43d248ac *man/ddtlcm-package.Rd
18298214ac30d4ae5abe8bb5c038b62f *man/ddtlcm_fit.Rd
290e9bed4ec6d00c479b6516011ccf7c *man/div_time.Rd
e5cd72c0a75d882cc25aeb16ff2f57cd *man/draw_mnorm.Rd
dac019f7b4695b706b094a7af083da73 *man/exp_normalize.Rd
3839a444a2c37c2648e6b3502270fe42 *man/expit.Rd
a84b4ce1b924a22374395b9883bc1949 *man/initialize.Rd
684e42e61021e9e9150c093b242014c3 *man/initialize_hclust.Rd
514387ad11da3695bf03c4890b3ae692 *man/initialize_poLCA.Rd
8031e18e7f33b0ecf61f85eaf7ab577d *man/initialize_randomLCM.Rd
956b8ae430512b1525e5fadf09f989f0 *man/log_expit.Rd
5022adc93eb1b1802d656707fbcf4864 *man/logit.Rd
9e2eb224e3a552b954c044c705ec848b *man/logllk_ddt.Rd
7138ba110ed10ec68bcef200768e283f *man/logllk_ddt_lcm.Rd
f339079619e4da5c70ad5b97672cc4e5 *man/logllk_div_time_one.Rd
9f05fe16e9b57fb4265dd4822165cd2f *man/logllk_div_time_two.Rd
7ae8d74a0aecf6978cc05b3321521110 *man/logllk_lcm.Rd
7e10faa10f2087747ae3c449ae324285 *man/logllk_location.Rd
788e4adc3b5ac07e9b4b8a3db28e3c24 *man/logllk_tree_topology.Rd
87dda048b6be670c3cfb484738c17e52 *man/parameter_diet.Rd
82ecb48a74118d5cb69486f7d8cc5ef4 *man/plot.ddt_lcm.Rd
c911c2831a4e6fa626af7910d04472d3 *man/plot.summary.ddt_lcm.Rd
66c379792050a537fa8e6931040571a3 *man/plot_tree_with_barplot.Rd
eb5408d0c70384038862274da420b82e *man/plot_tree_with_heatmap.Rd
10c0520e80eb29178b4e496db64420b1 *man/predict.ddt_lcm.Rd
f5ffab8b904f6c7972286bb31c17fee4 *man/predict.summary.ddt_lcm.Rd
1efd7261dea287abc27ddc2f9e3a451e *man/print.ddt_lcm.Rd
3b6344cec0f8cc3e637b8bc7e86aacd4 *man/print.summary.ddt_lcm.Rd
ee504102fe47799b910bd808968ac21b *man/proposal_log_prob.Rd
a9debfe7880ebcce25c65b2c87e9ada6 *man/quiet.Rd
c952c294e60a28ac5e064c8f10278838 *man/random_detach_subtree.Rd
84dd2810224f9b9817f627b2bca5faea *man/reattach_point.Rd
ac14d502f4b32e1e3ecbb484b08fa617 *man/result_diet_1000iters.Rd
8285b728033ad5ea2cde764c6620c628 *man/sample_c_one.Rd
f8491f63eea3d939c04c20cc17c528be *man/sample_c_two.Rd
7ee87160ffc56eed750c5810e7652f4e *man/sample_class_assignment.Rd
85c1fbf3c39057570b321d68bd9c87c4 *man/sample_leaf_locations_pg.Rd
45411a51969f4b7b697519fad3fa00f4 *man/sample_sigmasq.Rd
3af1146462c7ed46add49f544f772024 *man/sample_tree_topology.Rd
1f04eb8eff9a10891868d04e5f1d50d0 *man/simulate_DDT_tree.Rd
8ebcd30b19215b8bfb88bf7224643246 *man/simulate_lcm_given_tree.Rd
12bf70c592e69f46bfa0a3d4ad874c4c *man/simulate_lcm_response.Rd
daab02b432d413dc271379bc0f021965 *man/simulate_parameter_on_tree.Rd
9c15b23fa4d3107ac9c00ee656a45beb *man/summary.ddt_lcm.Rd
27d30bfa63c39da99f80a60b71b3184e *tests/testthat.R
cd25f5df6325ecabd2fc7b6e30ade624 *tests/testthat/test-ddtlcm_fit.R
d4c1d6219d9bd7524ac5ca0437462cf5 *tests/testthat/test-initialization.R
14fe94d7cbcd76745441f0d833f8a16d *tests/testthat/test-loglikehoods.R
89fe5a48c377f95271bc5d17d4626fea *tests/testthat/test-plot_functions.R
9442fb260224d1fc1d5dba5153637aa5 *tests/testthat/test-predict.R
0845ab385e95c1f66adbba775c29bdf8 *tests/testthat/test-print_functions.R
bbf2a90df590746abc1bc000fbcfe7a9 *tests/testthat/test-simulate_DDT_functions.R
202b407a9ca729ddb48f867a431bc966 *tests/testthat/test-summary_functions.R
fece2e84bb3a543b350992ba95f77d61 *tests/testthat/test-utils.R
7e09bfe5083400a0baa9b2d888fddc72 *vignettes/ddtlcm-demo.Rmd
