76832be5f07e9cd66e1ac88ec895caa2 *DESCRIPTION
22cbfe7bb5a33b5edb1539c76b60d754 *NAMESPACE
3166ede3b0ca1f3f9e342e24cf01fc00 *NEWS.md
df6cc46bc7fae1a55b713f3d5065b35a *R/DAISIEprep-package.R
7dc27b0c785b2984fa5c9d31d037069b *R/add_asr_node_states.R
aca84b73dfaeda077d6e46cc20bb983b *R/add_island_colonist.R
19109c523e4e15e9f16b3e956bc655eb *R/add_missing_species.R
31ce70c67b4e31c391db0ec935c1ab32 *R/add_multi_missing_species.R
9bedc48da8b059a2ab30072ed675ecef *R/add_outgroup.R
e697049e8f3b95d7c2e2deb56d381b9e *R/all_descendants_conspecific.R
eaf1492ac45a56c506df4bd607e49217 *R/any_back_colonisation.R
82495599042fcc17e85dc3d50b03df74 *R/any_outgroup.R
f2d9bcf6380ae72d32b7b4c473d5409b *R/any_polyphyly.R
8b9d1c71547baf61a977858839926fbc *R/as_daisie_datatable.R
5b6fe7a66e16050557ca52562fcc74ad *R/benchmark.R
364d94fd681a3cf88c54a952b159d372 *R/bind_colonist_to_tbl.R
8f56ef6c149d6fcce192d2614dc68a04 *R/check_phylo_data.R
8a3e82ba48d34ff4b4ee78590a5f7452 *R/count_missing_species.R
7e1a6077a3b2b298fad8bcf6f6b9d66d *R/create_daisie_data.R
486c4f1ae9104cc16bfe2b2e84f114e3 *R/create_endemicity_status.R
a9d51691cb21e512ce24aa16f84ee3fb *R/create_test_phylod.R
dffa533205b352aec9c037baa16be677 *R/default_params_doc.R
8f0bc910237f7c270e8620e293176da7 *R/endemicity_to_sse_states.R
1ac0469fa13f4645c22ea0cf46520e88 *R/extract_asr_clade.R
204efc09cfd04c0e3642de0d3b54282f *R/extract_clade_name.R
fc0a9db3f70202d90f645418f0d87768 *R/extract_endemic_clade.R
20d7676c81ee5c67e7602086b020ffd2 *R/extract_endemic_singleton.R
2082458fd947bf103ba4a749b9992f7f *R/extract_island_species.R
d674e483314d59d64485c492010a6da8 *R/extract_multi_tip_species.R
55ff3b62b4597818a1dd5eef4f8c6f91 *R/extract_nonendemic.R
f3ed954534574be70f5aa6f0fa6478b2 *R/extract_species_asr.R
fbaab08add2dfbace457f0fdabe6c263 *R/extract_species_min.R
048188b5e091caaa03070da366cf2b1d *R/extract_stem_age.R
c7c19696fd528b0cffd6324a0ed5c282 *R/extract_stem_age_asr.R
4fe4764ce32ac94b2dbbfbbff57810ff *R/extract_stem_age_genus.R
e7ad3c9144d80e4886730a714ffcdefc *R/extract_stem_age_min.R
bf68363d846c719742888967d999224f *R/get_endemic_species.R
fcee04572e9f605f216fdf01a15e9593 *R/is_back_colonisation.R
2e39611152d0a8dc3b2ddec01838a152 *R/is_duplicate_colonist.R
86d268a47ffdf57094b56cd392385ee5 *R/is_identical_island_tbl.R
d6cdae26d5c77fcd3c4cf88f4d97e5db *R/is_multi_tip_species.R
d328c8d0b0574a1b77701a63282e2751 *R/island_colonist-accessors.R
b56bb9bf38117642a7727c77be78ab48 *R/island_colonist-class.R
f9f0659043d5d261690a0f73a51a2547 *R/island_tbl-accessors.R
f7e66da6bf20108778ce4605abaa6948 *R/island_tbl-class.R
d41d8cd98f00b204e9800998ecf8427e *R/island_tbl-methods.R
40024bc96da2e3e00ae1fad053b024a9 *R/multi_extract_island_species.R
4be18ba74a1f3cab1aa59a76ae678246 *R/multi_island_tbl-class.R
949ee8f6fd160d0fd38124b27961a476 *R/multi_island_tbl-methods.R
35f50ebf31efa60d999fad1141ef8a0a *R/plot_colonisation.R
8aa2cae27cff7084ace447765abf919f *R/plot_performance.R
4325409cefb3e3154d3f425ded19f63c *R/plot_phylod.R
e0b3fec60f138b08cd835d70bd45d6f5 *R/plot_sensitivity.R
7392afd2649e1eae614af45dd2b471c1 *R/print-methods.R
2510c2fe9c5174ce0f75f8800b2369f5 *R/read_performance.R
dd963836fde46048b2b3479bfeaf23d6 *R/read_sensitivity.R
45e908dff1a1a7ab39672b4d24355ba2 *R/rm_island_colonist.R
9fbd9566837e7932fd076c235ba6128e *R/rm_multi_missing_species.R
2c4f6467a38a302021edeb653821f251 *R/sensitivity.R
94100a832cad1f2af990949b9ec209ba *R/translate_status.R
27991bf4adf317c52e75f30969197e9f *R/unique_island_genera.R
42b204d554b3239a05553cbabc22aae4 *R/utils.R
a1a5963c4195d189ea3bc12ef56d2122 *R/write_biogeobears_input.R
b1e83d2068acf7932fe86ce228531b63 *README.md
328d998f166feea6a25e8609bcc21007 *build/vignette.rds
42c671e47a4d1fb963eed1796eea14ea *inst/doc/Performance.R
e969b63cfdc979391abc8a0f623202bd *inst/doc/Performance.Rmd
1a54e9fc82dcad6e2f49a332e1661d6e *inst/doc/Performance.html
3881bac9a38de6afa695c1db2a84d6f4 *inst/doc/Sensitivity.R
b5578210822a781b4f01f8e1ed1fc624 *inst/doc/Sensitivity.Rmd
cefe6a56e8811c5abf3c3ffd011380c9 *inst/doc/Sensitivity.html
1167e66e7a7ffed9befd488df7cfa5be *inst/doc/Tutorial.R
f5eec41f7d1b908a377855433317079f *inst/doc/Tutorial.Rmd
08ec2f81add8c52164f5bbb2a0aa4f71 *inst/doc/Tutorial.html
b03eba7a04acd05dba9ed53ff5413c5f *inst/extdata/Coccyzus.tre
e7ff8235db0a7ee334678dde62434a6a *inst/extdata/Columbiformes.tre
6faa4a7544ed7482977f7defc5d94343 *inst/extdata/Finches.tre
f7cbdad8bbb3228565bdde620204581f *inst/extdata/Mimus.tre
112096d5a53a5391a587ffac90983377 *inst/extdata/Myiarchus.tre
cbf297128acd25dd83c96bcde8482cad *inst/extdata/Progne.tre
b4a57582e7f3303259f468ae1df433e6 *inst/extdata/Pyrocephalus.tre
5f130c87f11dc16a50ecae2db3024a05 *inst/extdata/Setophaga.tre
7656ea285f1848856f5315d682cb5e1f *inst/extdata/coccyzus_phylod.rds
7b575638450db6a8eaf930f327f53fa0 *inst/extdata/columbiformes_phylod.rds
da0553b52ea117aaf7f43ef96951cb06 *inst/extdata/finches_phylod.rds
b3b2446cfed8cb5f8cbaa6a6f153c88f *inst/extdata/mimus_phylod.rds
36eba9ee296c39c5f6fe6c5fdec80f39 *inst/extdata/myiarchus_phylod.rds
d841e4da61710d72ea92319b7e9059b5 *inst/extdata/progne_phylod.rds
70e9cfd02a0421dedf763250d8e98239 *inst/extdata/pyrocephalus_phylod.rds
88199043acdd33826e11f9e83239ced8 *inst/extdata/setophaga_phylod.rds
bd14c7aad796403cfb52bfb209131ced *inst/extending_asr/biogeobears_ex_biogeo.txt
490baffb7f18d14ef23273248bb14367 *inst/extending_asr/biogeobears_ex_phylo.txt
8f51e8079279bcbf98ca135e00ae90e9 *inst/performance_data/performance_empirical.rds
610cde5b4fd20dd1f5b01b7ba3eee65c *inst/performance_data/performance_param_set_1.rds
84512ebbbbca9a60919e04f3c4fccfed *inst/performance_data/performance_param_set_10.rds
3824be0ff9ec6088eec42c5a6fa7af7c *inst/performance_data/performance_param_set_11.rds
739a20466393fde3571e741333f1d886 *inst/performance_data/performance_param_set_12.rds
ac8b3d50af81661ae38a4c6479cf8be0 *inst/performance_data/performance_param_set_13.rds
17d36ef4e29e98d986ccfe448656971a *inst/performance_data/performance_param_set_14.rds
d4177b6691000462a5e9262a1b2a8091 *inst/performance_data/performance_param_set_15.rds
d74a92c19a4ab746d142ee5c6dfa257b *inst/performance_data/performance_param_set_16.rds
0ae189ecdf6b9a4fe076595f6bb47b32 *inst/performance_data/performance_param_set_17.rds
123d9ce0be4bbd397a57bb8235133421 *inst/performance_data/performance_param_set_18.rds
d9c6b9ca158bf438033d8c66e60e3188 *inst/performance_data/performance_param_set_19.rds
f65a05a9a8cd14d058a6dc44e2f0a513 *inst/performance_data/performance_param_set_2.rds
e61441c491748578fd3d7d55846425cf *inst/performance_data/performance_param_set_20.rds
41b4fcca3ad80065b22f0638ec947f0d *inst/performance_data/performance_param_set_21.rds
e6b7f4b26401ba34ecb0bd386cd04b0a *inst/performance_data/performance_param_set_22.rds
efb0c77991ff0c348cb485aae1ce3c86 *inst/performance_data/performance_param_set_23.rds
91ac8f038db89f73b7388997b713806b *inst/performance_data/performance_param_set_24.rds
4712613d889567e2b7beb5e2ff691cd5 *inst/performance_data/performance_param_set_25.rds
596d80503a87de4bea204c010df6bbf8 *inst/performance_data/performance_param_set_26.rds
d8e4d8ce2570c21954d45f485f8cf84f *inst/performance_data/performance_param_set_27.rds
d810e4e83353579f6746b9724613e601 *inst/performance_data/performance_param_set_28.rds
7ac74888114a0186cec8cb7ae60e2879 *inst/performance_data/performance_param_set_29.rds
4c8833ee57df98a47eb8e56c2a02af85 *inst/performance_data/performance_param_set_3.rds
41e53a3065dfbe94b1c2125aaaaf94c3 *inst/performance_data/performance_param_set_30.rds
938a1fdfcb8125d411ab671b917f5e06 *inst/performance_data/performance_param_set_31.rds
d5f6794277f77ffc10b347ea3085bc53 *inst/performance_data/performance_param_set_32.rds
662a53358e08a642afb10fec4978c486 *inst/performance_data/performance_param_set_33.rds
1405393ad7b079e80aaa45f136dd4562 *inst/performance_data/performance_param_set_34.rds
7c2da5ea545f462359e5f60702286772 *inst/performance_data/performance_param_set_35.rds
93e8c83884e00ea94e89a41af2be1129 *inst/performance_data/performance_param_set_36.rds
fc43c2818efb8b76a9979319c7074467 *inst/performance_data/performance_param_set_37.rds
3b52f0c9889d34777245fcbb5a92c25b *inst/performance_data/performance_param_set_38.rds
43f0e6ea3452d463af8346b2ddc26e55 *inst/performance_data/performance_param_set_39.rds
450a9919d363891a5f242ff6844c0c02 *inst/performance_data/performance_param_set_4.rds
e6539dcb5662c789df53fe6a995acc2e *inst/performance_data/performance_param_set_40.rds
3b6b9cbd2a90dfcd3637de3dee5a0f34 *inst/performance_data/performance_param_set_41.rds
f8bff1637eabcedbce2b430c3b18a018 *inst/performance_data/performance_param_set_42.rds
7bfee954feb7103781cf0c54610ba7bc *inst/performance_data/performance_param_set_43.rds
07c3911674e90a8b86bef415f4b7f9d2 *inst/performance_data/performance_param_set_44.rds
8cb1130b5fb55e0ba61d6811473d7f4a *inst/performance_data/performance_param_set_45.rds
85ac4899d90c944912dd7690729d7792 *inst/performance_data/performance_param_set_46.rds
c069483251f81c64d53a3a25b788a5a7 *inst/performance_data/performance_param_set_47.rds
41c04173431bf338aaf6dc22569c9057 *inst/performance_data/performance_param_set_48.rds
32c67ed9f3a7aab7c892f51f88e752d3 *inst/performance_data/performance_param_set_49.rds
1f01ad03f07e2e0de1110dacce7119fa *inst/performance_data/performance_param_set_5.rds
1deb5c98bf13368872b7f46f711d9279 *inst/performance_data/performance_param_set_50.rds
3348558d8de8499feac5db09a0e7dab9 *inst/performance_data/performance_param_set_51.rds
8b581591b09c335d150ee9c51d152483 *inst/performance_data/performance_param_set_52.rds
d3d0e8606e1ca7f616f3ab626591c15f *inst/performance_data/performance_param_set_53.rds
f9c30a1936f70755e43cf31f61909451 *inst/performance_data/performance_param_set_54.rds
557710a309a21ed8b59252b0aecf8f13 *inst/performance_data/performance_param_set_55.rds
f517dc9705c379e07b33c30966c017d1 *inst/performance_data/performance_param_set_56.rds
d5195194912d3c2eb58795f1e1da13d2 *inst/performance_data/performance_param_set_57.rds
60cf7ad27df57559ad41b93c5975bef8 *inst/performance_data/performance_param_set_58.rds
c3fa20dc34058f2dd3388569818331a8 *inst/performance_data/performance_param_set_59.rds
e21317654247c66204600ef05d5d354b *inst/performance_data/performance_param_set_6.rds
cbe38455e15e5527de860a45329245a0 *inst/performance_data/performance_param_set_60.rds
f72822ea23d7b1ff0044badf273b9cc4 *inst/performance_data/performance_param_set_7.rds
52c5c54731032a47315154452f5212ef *inst/performance_data/performance_param_set_8.rds
efde0ce2e2f9cc17948c32c9f4245dee *inst/performance_data/performance_param_set_9.rds
bdaf9a2c3600969b6c72804593e44d22 *inst/sensitivity_data/sensitivity_tree_index_1.rds
19a1f64de35c391738f4f4d06d63033b *inst/sensitivity_data/sensitivity_tree_index_10.rds
1ea28e6b61e2bb6b5a48ea211d90428c *inst/sensitivity_data/sensitivity_tree_index_100.rds
68e8c4a8e22557ea2aaf6de700a5cf36 *inst/sensitivity_data/sensitivity_tree_index_11.rds
09bc2c4bc5f2021e2a5eaa054d0cce53 *inst/sensitivity_data/sensitivity_tree_index_12.rds
99b3df88553420bd929546d21261e87c *inst/sensitivity_data/sensitivity_tree_index_13.rds
f05bb12a7fd02101641a94fb2da94f21 *inst/sensitivity_data/sensitivity_tree_index_14.rds
c26861d337b1b0ce53eb3fa5725280ef *inst/sensitivity_data/sensitivity_tree_index_15.rds
b6a020ba6e91c16d9cfafb543ae6358a *inst/sensitivity_data/sensitivity_tree_index_16.rds
65542b5a6f79e457c4fc632d43f2469f *inst/sensitivity_data/sensitivity_tree_index_17.rds
ee993846ad64888e0de595e58f81f7b7 *inst/sensitivity_data/sensitivity_tree_index_18.rds
5889a63b5e21cedc032552a5713431d3 *inst/sensitivity_data/sensitivity_tree_index_19.rds
7b6670105adab3edefe293a75ba1e083 *inst/sensitivity_data/sensitivity_tree_index_2.rds
b818638ab9685aff89e3e5ce5f360906 *inst/sensitivity_data/sensitivity_tree_index_20.rds
62dfcebf246612b3bcc92ff013ec27b6 *inst/sensitivity_data/sensitivity_tree_index_21.rds
56cfc138f9271ae8fcd7b4e50d02b782 *inst/sensitivity_data/sensitivity_tree_index_22.rds
cd5e26105c7d4af6e405a91659a228a2 *inst/sensitivity_data/sensitivity_tree_index_23.rds
7e0f3ace57f38235f39c2e7aede65325 *inst/sensitivity_data/sensitivity_tree_index_24.rds
166ad3a5195faf3d433c196f8e511d07 *inst/sensitivity_data/sensitivity_tree_index_25.rds
02b4c40d5f68aab98f456ae3eb84eaf8 *inst/sensitivity_data/sensitivity_tree_index_26.rds
0f99a678be9efe7afdf71c2e02ab458c *inst/sensitivity_data/sensitivity_tree_index_27.rds
aef0bc0528615056533cb5c21a01805a *inst/sensitivity_data/sensitivity_tree_index_28.rds
2c0510e0fc861adf28e5fefabf16a67f *inst/sensitivity_data/sensitivity_tree_index_29.rds
4d23760cd7dfe808d939e037c660cc64 *inst/sensitivity_data/sensitivity_tree_index_3.rds
05d76305e858fedeb55e3e5ec1af9284 *inst/sensitivity_data/sensitivity_tree_index_30.rds
c790ae7ce08687d16aca4b00f72b1a46 *inst/sensitivity_data/sensitivity_tree_index_31.rds
769f34526e7707a2b12e6d4c1056513c *inst/sensitivity_data/sensitivity_tree_index_32.rds
2707b64d3f1ddbf7b95b3d70287d481e *inst/sensitivity_data/sensitivity_tree_index_33.rds
9225429250295ed525a036db1ecaa35a *inst/sensitivity_data/sensitivity_tree_index_34.rds
9c4557189c35fcc3c696513c051444b6 *inst/sensitivity_data/sensitivity_tree_index_35.rds
fa64e14f8e217d390bc07a6d8cd90ea8 *inst/sensitivity_data/sensitivity_tree_index_36.rds
1ce9e5d4fbd909b8e3996f26eca52d01 *inst/sensitivity_data/sensitivity_tree_index_37.rds
1de6f6a7e2c3e94b658e4b79ef7897ae *inst/sensitivity_data/sensitivity_tree_index_38.rds
c963507e960aa8bd52760fa87785e7db *inst/sensitivity_data/sensitivity_tree_index_39.rds
c8456d1978d86f40d38d9953829511a1 *inst/sensitivity_data/sensitivity_tree_index_4.rds
f5a571a9f151bc8eca92d79e0589b82d *inst/sensitivity_data/sensitivity_tree_index_40.rds
2090daf9f2f0192426c7d775d9c2eb27 *inst/sensitivity_data/sensitivity_tree_index_41.rds
30f2184f30f1e06e2d2e4c0680e2eb7c *inst/sensitivity_data/sensitivity_tree_index_42.rds
44a923c85ae283e96b75f3051376ec7c *inst/sensitivity_data/sensitivity_tree_index_43.rds
d097aaffc901de2a66944398954e8a22 *inst/sensitivity_data/sensitivity_tree_index_44.rds
a0b3b965ad0cfd72cb6c4a01f7c1019e *inst/sensitivity_data/sensitivity_tree_index_45.rds
849d93b8b5c532022fc2234f5573619a *inst/sensitivity_data/sensitivity_tree_index_46.rds
7eee56462132c5a33fc499ce843fdd2a *inst/sensitivity_data/sensitivity_tree_index_47.rds
6d94c2cfd315cc8daa1e0aa9fc32c81f *inst/sensitivity_data/sensitivity_tree_index_48.rds
26c81c27d2c6e7befc1a90ce007b5b6b *inst/sensitivity_data/sensitivity_tree_index_49.rds
66646e6095d554fc1fafc607271efb9f *inst/sensitivity_data/sensitivity_tree_index_5.rds
e82a5e0eadf499d182476cb881bc04a7 *inst/sensitivity_data/sensitivity_tree_index_50.rds
bd67cdd034f5dedadbbe56a3cf04c479 *inst/sensitivity_data/sensitivity_tree_index_51.rds
9d253a26baef90e5377c0956c1849469 *inst/sensitivity_data/sensitivity_tree_index_52.rds
3e6ad3ec8acd26b6e9939cffc6d7965a *inst/sensitivity_data/sensitivity_tree_index_53.rds
063e45e429d8322d37cfc22555701b0d *inst/sensitivity_data/sensitivity_tree_index_54.rds
61a5f6c1874007ccaed0d3652ef924e4 *inst/sensitivity_data/sensitivity_tree_index_55.rds
0ee6db463929685d5a7e2192d39f536b *inst/sensitivity_data/sensitivity_tree_index_56.rds
867823edf8c84cef9a68ccc1df06d8b8 *inst/sensitivity_data/sensitivity_tree_index_57.rds
6e99fa8ac9ef22b5ecdf6f214698d2ed *inst/sensitivity_data/sensitivity_tree_index_58.rds
376860d2b24fa7a67721110bdaecbf09 *inst/sensitivity_data/sensitivity_tree_index_59.rds
a5fce5b113da6cf037176e31b8add14e *inst/sensitivity_data/sensitivity_tree_index_6.rds
04634f56b0e727b6121cfcee9caeaec1 *inst/sensitivity_data/sensitivity_tree_index_60.rds
635a6df4557d5ab9d0c6e2f742f27d6b *inst/sensitivity_data/sensitivity_tree_index_61.rds
f9eaae317a3b155636c51660cdc08e7b *inst/sensitivity_data/sensitivity_tree_index_62.rds
7e628601f3090c965b725aede4531205 *inst/sensitivity_data/sensitivity_tree_index_63.rds
4c8f58b49ad4b05fba77b18c9c08d37b *inst/sensitivity_data/sensitivity_tree_index_64.rds
09400250bbe7cc11e466d3f2ce905da8 *inst/sensitivity_data/sensitivity_tree_index_65.rds
9cdf8dd6ca89da0eb6449a9f1c630cf5 *inst/sensitivity_data/sensitivity_tree_index_66.rds
1f727cb4ddff33e0f0397300be00feb4 *inst/sensitivity_data/sensitivity_tree_index_67.rds
e67120d89f56dfc00a79c1b59bba7c15 *inst/sensitivity_data/sensitivity_tree_index_68.rds
0cae29b8d798dc7e2598db60cae5adc2 *inst/sensitivity_data/sensitivity_tree_index_69.rds
a0692c39653550a191f5474839744eef *inst/sensitivity_data/sensitivity_tree_index_7.rds
3e274912ead5f33280c1d83e1bc453a5 *inst/sensitivity_data/sensitivity_tree_index_70.rds
7ba6770fbb90366e5e116c6737a8867e *inst/sensitivity_data/sensitivity_tree_index_71.rds
293bd02c7591ccae5660bd6e668fca5d *inst/sensitivity_data/sensitivity_tree_index_72.rds
8454efe50b96acb17262fad10bdc4a40 *inst/sensitivity_data/sensitivity_tree_index_73.rds
1deed61602a28859da852f60b0c97891 *inst/sensitivity_data/sensitivity_tree_index_74.rds
ff1fbf4c39c8680cbeaf2e81fba116a7 *inst/sensitivity_data/sensitivity_tree_index_75.rds
8f935078c85536844fd2380c8753cad1 *inst/sensitivity_data/sensitivity_tree_index_76.rds
6911a9f3044f0fb64bd52318d57dfbdb *inst/sensitivity_data/sensitivity_tree_index_77.rds
e223f3cafbfe278b372acf78aa478a4f *inst/sensitivity_data/sensitivity_tree_index_78.rds
f32fb4e0ae02fd624a39e0812198ecd0 *inst/sensitivity_data/sensitivity_tree_index_79.rds
58549bf952d2601776c5b0a0f5038567 *inst/sensitivity_data/sensitivity_tree_index_8.rds
1f56d593bf97b0bbdee72e31a2f0fad9 *inst/sensitivity_data/sensitivity_tree_index_80.rds
2e0bce031e7772f8d07f8427b6f69d30 *inst/sensitivity_data/sensitivity_tree_index_81.rds
db05eb96bafd36b853caa98a80f3a61b *inst/sensitivity_data/sensitivity_tree_index_82.rds
9e741323b0daa85f7eb1e7b31a0c12c5 *inst/sensitivity_data/sensitivity_tree_index_83.rds
5a6e8157e692aeaf90a639790ba168b7 *inst/sensitivity_data/sensitivity_tree_index_84.rds
ac7f860479fb83f30f22173baedf610c *inst/sensitivity_data/sensitivity_tree_index_85.rds
8cfb346099035371032727c1a306255c *inst/sensitivity_data/sensitivity_tree_index_86.rds
63b0e4b96830a2039c1599c31229288a *inst/sensitivity_data/sensitivity_tree_index_87.rds
1a77ca53cb0a5fb11587e32bf6dd415c *inst/sensitivity_data/sensitivity_tree_index_88.rds
e67c296b2fa3c9e8312b1539efb30359 *inst/sensitivity_data/sensitivity_tree_index_89.rds
39c63a4dd91ce2e1ee7a8a89fce0d73b *inst/sensitivity_data/sensitivity_tree_index_9.rds
39807cd8be17c2fdb21172e45b9e4564 *inst/sensitivity_data/sensitivity_tree_index_90.rds
ea97c1e550abfcea7d7c6b8608fa8b5c *inst/sensitivity_data/sensitivity_tree_index_91.rds
782b2b1f0b860c00ef02f3bf09bf6daa *inst/sensitivity_data/sensitivity_tree_index_92.rds
4ef8aecef4c78d0787ceda8c361a0af4 *inst/sensitivity_data/sensitivity_tree_index_93.rds
bb6c0c0cb9dba6b06b81ed9f608670e0 *inst/sensitivity_data/sensitivity_tree_index_94.rds
f53be5cc2e6e3c3a329f0635efa5edb0 *inst/sensitivity_data/sensitivity_tree_index_95.rds
df63b2c466367f7290f01ee486c26fc7 *inst/sensitivity_data/sensitivity_tree_index_96.rds
be68d0420884ba0ac0c9b1417787c355 *inst/sensitivity_data/sensitivity_tree_index_97.rds
2af18b13285c6f265e51da1612fc0485 *inst/sensitivity_data/sensitivity_tree_index_98.rds
034d2603c111b0be6efa417fff05b6b8 *inst/sensitivity_data/sensitivity_tree_index_99.rds
4c8305d2b4edffdcce4b1192415a7557 *man/DAISIEprep-package.Rd
e2be96a616b5e5a961f5bf0f59ef5010 *man/Island_colonist-accessors.Rd
45297f35c31b54cfe37138363032d8e3 *man/Island_colonist-class.Rd
9460c1fda384b5090f8dc037b5842b82 *man/Island_tbl-accessors.Rd
024958ce2bc0c0344bf29f32d2cd2af5 *man/Island_tbl-class.Rd
c91c8282acf4b62fa62c2183d9bdf25a *man/Multi_island_tbl-class.Rd
2b1f61722000cfffd64fcadef1e611b1 *man/add_asr_node_states.Rd
74683209341fdd2325c2fcaa51466459 *man/add_island_colonist.Rd
956f51caf602a299ff5f1b08e84d5ce1 *man/add_missing_species.Rd
6333a68a35302c06f653cc416eaa08fa *man/add_multi_missing_species.Rd
da2138a4c75aab196857da8a5376ca69 *man/add_outgroup.Rd
ed67d920bf2151a86c42e7e4c90e1336 *man/all_descendants_conspecific.Rd
214fc5cb5c1b86cd689887f6453a9256 *man/all_endemicity_status.Rd
e4df56732e2cf39eb560a80520554f7a *man/any_back_colonisation.Rd
cc6c1ac9815067f7997b83d3e4629a27 *man/any_outgroup.Rd
8a82bfb5384d0ae18cd8f972c9d0c5e5 *man/any_polyphyly.Rd
24ca47665822d9e570cfb1bd5c79540f *man/as_daisie_datatable.Rd
274f6b72269087e74a4077bc4f73c2a8 *man/benchmark.Rd
a075eaeed129dcd7c999a5aaaa82b1b5 *man/bind_colonist_to_tbl.Rd
dab7d1ef31bc9c856357da1fd0ef61e6 *man/check_island_colonist.Rd
96f92ebe102b9d904492d31753c1546a *man/check_island_tbl.Rd
170022a8c751a77673b62d9fbbfc04a4 *man/check_multi_island_tbl.Rd
176e09c1cc155aed519cae86f279e35b *man/check_phylo_data.Rd
c6a7fbfe6aceecd5776eca42936fe224 *man/count_missing_species.Rd
a01dba19891b5bce60c3c7c574207cd2 *man/create_daisie_data.Rd
fcf6679c350ef436f582c8356592484d *man/create_endemicity_status.Rd
2cb011b6a505b0ea9bfd8763145c30f0 *man/create_test_phylod.Rd
0463e92e6c96e547e7102f7adc472a49 *man/default_params_doc.Rd
6e013e7a275f298aa708db3f273407b5 *man/endemicity_to_sse_states.Rd
96f5df0997b4576619f86c90e1358e98 *man/extract_asr_clade.Rd
40f6c8e7f02a2693db90baee795bbecf *man/extract_biogeobears_ancestral_states_probs.Rd
70fff5692a355a29e7cf855cb8ee5fca *man/extract_clade_name.Rd
b42323de20e36ceda3a677da130205af *man/extract_endemic_clade.Rd
9d074741561ed38f893347ebaf993a14 *man/extract_endemic_singleton.Rd
afae76a3754f1a8db14988c23de1b8ab *man/extract_island_species.Rd
af56922b7a66d903daf76018cc9fe197 *man/extract_multi_tip_species.Rd
c96fd83cf972cbdcd6c26c1944fde685 *man/extract_nonendemic.Rd
273f9e84d43edea5087119d90761911f *man/extract_species_asr.Rd
9e1948a95c747e15cf526a97c1567bd8 *man/extract_species_min.Rd
0fc21d6e908ebf3ce231d828ee82a46e *man/extract_stem_age.Rd
93d0f79e7758582c86bf6cad8f8141f4 *man/extract_stem_age_asr.Rd
2ff9df421b929b34fffe0f61a393fc9a *man/extract_stem_age_genus.Rd
21706731f3ce031f7c8aae8b3317294d *man/extract_stem_age_min.Rd
272d071ea1edc1738c1f153b863832c3 *man/figures/logo.png
447a9cabf37b69bfafd4e4a56716ed65 *man/get_endemic_species.Rd
cc15bce448cd9058d778bff6d7d48866 *man/get_sse_tip_states.Rd
bbf14736d0b4853b9e4db7cca5429396 *man/is_back_colonisation.Rd
c4ff32b3481c34aa6bc035b02c0a0c5f *man/is_duplicate_colonist.Rd
64c9dfe16882cc521902db19119dd53e *man/is_identical_island_tbl.Rd
116aa69a141feca11a0fd6046bb8fbdb *man/is_multi_tip_species.Rd
05eedf05739d3c53e10809ae660d8f47 *man/island_colonist.Rd
4465e0800f649705e99189d30ca3e76d *man/island_tbl.Rd
5e95042dbad2c63ac49232f7f5bd9859 *man/multi_extract_island_species.Rd
713a3ecbe1d7c9ad74d7c53c3197e6b6 *man/multi_island_tbl.Rd
fff9d8939e5b8131f72f32ada4217d52 *man/plot_colonisation.Rd
398fc249085c3071d404aad9baaa0555 *man/plot_performance.Rd
ab2c39643365c4b873db62c0922b79d2 *man/plot_phylod.Rd
8e010d717955e8307a292346889e712d *man/plot_sensitivity.Rd
ccdafb1970316b5f140f95f82efea482 *man/read_performance.Rd
f4d8c9ecf94cf808f81e399ca3cf7444 *man/read_sensitivity.Rd
40e70694dbdb9dacc34369747c2890b2 *man/rm_island_colonist.Rd
ed7f2011bf9edeec099cfc20d935b09e *man/rm_multi_missing_species.Rd
dffa9734ee2e0b690aa5a5cc8359bfdd *man/round_up.Rd
83b572b5f455e0ab427ddf66501c1cfa *man/select_endemicity_status.Rd
d771fd2256410a1a21bb7f98a21bfac7 *man/sensitivity.Rd
75bc325671294abac6761073a85da732 *man/sse_states_to_endemicity.Rd
9a76e5d5469215deb248b645c39457f0 *man/translate_status.Rd
e94a1e95a5e7915550b7c4fc2b4e7e4e *man/unique_island_genera.Rd
6c06fbb4f433bd0738add0de4ca106b1 *man/write_biogeobears_input.Rd
34d068404e2c8e06e2dbcbd115d74fd7 *man/write_newick_file.Rd
a20499ffbca01297f92a896c27febe8d *man/write_phylip_biogeo_file.Rd
eadfc40210e7265e961c444893586780 *tests/testthat.R
39263c69725569efa5f8e2dcd4595f8c *tests/testthat/test-add_asr_node_states.R
e90ebd927266e3c6892c6247b45d5b0c *tests/testthat/test-add_island_colonist.R
5275af0043896a65460dcfa909fc23f3 *tests/testthat/test-add_missing_species.R
e252fb875f72385b8a45e5a114639531 *tests/testthat/test-add_multi_missing_species.R
c93813c1432cd7e431038b7e55891d14 *tests/testthat/test-add_outgroup.R
8e4c7e36d59e16f648f0a8aeb42aac6a *tests/testthat/test-all_descendants_conspecific.R
44e22dbc34d782fc7f7d1b2e470e6f25 *tests/testthat/test-any_back_colonisation.R
60dc46ba6f07c7a91907f037c8c5594d *tests/testthat/test-any_outgroup.R
e8154f1d19ec93c0e22a5ce2938e682e *tests/testthat/test-any_polyphyly.R
de93f9c63bbf34cb0c5ceed9b666770b *tests/testthat/test-as_daisie_datatable.R
a6ab1bcc3b65b2952b006524bab29d23 *tests/testthat/test-benchmark.R
0c95012ff0bf3f4cad60763f8ae0480b *tests/testthat/test-bind_colonist_to_tbl.R
84a7d5b75afdbe86e6984e3ebe6d864f *tests/testthat/test-count_missing_species.R
d9faa6f82619d622582f41cc900e6285 *tests/testthat/test-create_daisie_data.R
f258cb377a6a9574f943a698cd6e0a04 *tests/testthat/test-create_endemicity_status.R
2018736b8abc360526cf7be9f9eccf37 *tests/testthat/test-create_test_phylod.R
aec6c9cc5006f070ae222fa134ba81b5 *tests/testthat/test-endemicity_to_sse_states.R
b411b8248630b7dd1d5e364763ed771d *tests/testthat/test-extract_asr_clade.R
787e3e928ac3c28b6dbc00edfdd3c1bc *tests/testthat/test-extract_endemic_clade.R
30592922215b12e2c985706b0a130131 *tests/testthat/test-extract_endemic_singleton.R
72bbaf1a8c7b20e45be38ee236748a62 *tests/testthat/test-extract_island_species.R
18ca846688841e1081a94833b1080a38 *tests/testthat/test-extract_multi_tip_species.R
b48eb23321e9f6ec94772e9575cdc405 *tests/testthat/test-extract_nonendemic.R
5a94c5b582e8b49205a0b12b56e4c214 *tests/testthat/test-extract_species_asr.R
7f78b9026374f7db9ebb27caacd516c4 *tests/testthat/test-extract_species_min.R
2ab27a12ff97aca799cf6f2250ff1f57 *tests/testthat/test-extract_stem_age.R
e1dc0b6f3db42432575c6f88c10b847a *tests/testthat/test-extract_stem_age_asr.R
c994cbabfc7e4f917f6b599822cb7f02 *tests/testthat/test-extract_stem_age_genus.R
61da01486f7e0e85258668cb0afead8f *tests/testthat/test-extract_stem_age_min.R
5ca960ab6f887b9946a0c73a135ff331 *tests/testthat/test-get_endemic_species.R
ec9bac384164e8e4bff00eefc5fa0725 *tests/testthat/test-is_back_colonisation.R
d1f2658ce1e1e7d922831efe34b6060f *tests/testthat/test-is_duplicate_colonist.R
031f568b04f8bb9f4a1ee76ec5511edf *tests/testthat/test-is_identical_island_tbl.R
a3d60b910a962803aab8edd2730c80c2 *tests/testthat/test-is_multi_tip_species.R
43a14198cb05f01a81d10bfb8f798ba7 *tests/testthat/test-island_colonist-class.R
00e6be49495463384f36b5761325c8a8 *tests/testthat/test-island_tbl-accessors.R
25c8a954e2770dd8ecdbb2cee6a3f84d *tests/testthat/test-island_tbl-class.R
29cc13af92df31b25c8611375c377979 *tests/testthat/test-multi_island_tbl-class.R
ff153aae82e95d0e424523f04d3bcb3b *tests/testthat/test-multi_island_tbl-methods.R
a1e556e15671875db59c3549c5ebc5db *tests/testthat/test-plot_colonisation.R
40386b58a6d4c3b5ab21189072e98da9 *tests/testthat/test-plot_performance.R
f2a232208ebb179d19024b992755c285 *tests/testthat/test-plot_phylod.R
c6596d8ea4966dcfe9ca8f28d1443ba4 *tests/testthat/test-plot_sensitivity.R
4489d0f1b6f723dab7a91a96f77c3765 *tests/testthat/test-print-methods.R
6fb38efe2475937c5f7cbac7fa7b23c9 *tests/testthat/test-read_performance.R
cdc0ac0a2c7152100e6e49291580f733 *tests/testthat/test-read_sensitivity.R
21e361c1ec5110d640941e9ca48029e9 *tests/testthat/test-rm_island_colonist.R
c2e2f01823d541d8dff608bf16fced6e *tests/testthat/test-rm_multi_missing_species.R
ad6e0103c0e30cc3d39c38856eec4cc4 *tests/testthat/test-sensitivity.R
19ea2dd5cdd1219ebb6b8fedb17cdfd2 *tests/testthat/test-translate_status.R
d9274864a3e4699de51bb5b6434a50c0 *tests/testthat/test-unique_island_genera.R
5d8bc4231e1b949b7dcd5c970e884725 *tests/testthat/test-utils.R
e969b63cfdc979391abc8a0f623202bd *vignettes/Performance.Rmd
b5578210822a781b4f01f8e1ed1fc624 *vignettes/Sensitivity.Rmd
f5eec41f7d1b908a377855433317079f *vignettes/Tutorial.Rmd
50112aa048e58e0b6781981b62c37793 *vignettes/evolution.csl
99e9a016a1db4d8bb4dc3174b8a18915 *vignettes/references.bib
