878c03dab3fe3f5f581c7fa9df79ffef *DESCRIPTION
e1980c2cb2c0533e2b371e31834cb2cc *NAMESPACE
df4b69716912c8727e4ca87a7b42c36e *R/RcppExports.R
432129a07bb3dee2f1e0fab7945d74d4 *R/data.R
fd5f21678765fa6137039093b8a6159f *R/findGroves.R
17975aae8a9d7cee5bf244e1f0b4dbca *R/medTree.R
343af974a80100a80710ffab63168f5d *R/metrics.R
853ce55aaf285865c150886e3039c005 *R/plotGroves.R
e379e86f6fcfdbb83dec5951e01c9118 *R/plotTreeDiff.R
24506a687e9db82bcc53b40182f82386 *R/servers.R
598e64bbe7b2f79bbc4683f1e50a6e32 *R/transmissionTrees.R
29c841f2e89fd3972b447e5d3f32e239 *R/treescape.R
d5f4e2f0f59d1bf1d1df487154e0a64f *README.md
3c81899daef2981e1c0e1d36395d3d33 *build/vignette.rds
2f82967b31cf0355fca77cf057da0b00 *data/DengueBEASTMCC.RData
1afe5da1601d5ae111806c08e57fec0c *data/DengueSeqs.RData
f128fb06ac44efd32fb04ecc06896bd2 *data/DengueTrees.RData
e49f82b9d2e4e04959fc1609e3242de7 *data/fluTrees.RData
48df74b1807cc03a99ea9f4d16e0a8e9 *data/woodmiceTrees.RData
3002f0fdfac24e20757b0d43909245a0 *inst/doc/DengueVignette.R
35852fb5cedd62189707301415463363 *inst/doc/DengueVignette.Rmd
ed1d7b3a6b79499bc380869ad66b7322 *inst/doc/DengueVignette.html
46169ff9884c48a26fcd1b44a3c77baa *inst/doc/TransmissionTreesVignette.R
30cd6c14357547e0c533b43e91e6bebd *inst/doc/TransmissionTreesVignette.Rmd
d7f0939b1058093e6359ce9bff53fbef *inst/doc/TransmissionTreesVignette.html
61f4980bd4c71d3163bee3019e9e4372 *inst/doc/treescape.R
645d4cc159f48436d3da1d1bf28fb601 *inst/doc/treescape.Rmd
1a9271a93588dd4b6e2015e53a48813d *inst/doc/treescape.html
f355cd0ca081697b5443bdf9cd439225 *inst/shiny/server.R
23263a88290b515ca36cbc6aeacdca84 *inst/shiny/ui.R
72a52ccb88878f4fbc01b01c956377d3 *inst/shiny/www/bootstrap.simplex.css
6209b93fd0d79a50e31f3e727b5e4e46 *inst/shiny/www/html/help.html
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10c78105a7ca827999c25885a737b878 *inst/shiny/www/img/logo.png
4c310bde08e114bcc81546201149f9d2 *inst/shiny/www/styles.css
ff8094b51ea7fc3e786c4271c66af83d *man/DengueBEASTMCC.Rd
a0e8cf546e2a86f7646f397ed7b110d4 *man/DengueSeqs.Rd
a69ee17f64e72b17fd4bdf396b018266 *man/DengueTrees.Rd
eba506be4bf2ea7f6d81728a1300bd26 *man/findGroves.Rd
75cf89dca202e084a120afa5e70ec60a *man/findMRCIs.Rd
954752421d63504a7697bfe389a55b79 *man/fluTrees.Rd
5f8d90d6d647f72f071fd58aea739068 *man/linearMrca.Rd
aa3b403c4c2dc0d2ad8c263fff53ac3c *man/medTree.Rd
e6bb1cf7a0c4a191b0922b004912a0de *man/multiDist.Rd
736ee7b68dc3b8b8740a6399736accd7 *man/plotGroves.Rd
8fc8c46369a05dd1f14aee6f8d6facf7 *man/plotGrovesD3.Rd
9c831e6cc3eaffaa9bd05a57844edf43 *man/plotTreeDiff.Rd
2cf4883b19e75fe6dbd2dfbe856dd256 *man/refTreeDist.Rd
1e6b59b7331a7ebb0fd118bf9a76250d *man/tipDiff.Rd
6b629fc2baca04b9b34fe142d8a35ee2 *man/treeDist.Rd
56aae6c5bf96ea75e82add8f64c22a27 *man/treeVec.Rd
143d597a81a1cd3c345b287a23a2d973 *man/treescape.Rd
573082f274bb8b87b340eff4721c1589 *man/treescapeServer.Rd
8b164b8cd44c25e9665032062a1dbc7c *man/wiwMedTree.Rd
563b8ed44be76cbab59bee54ded6af53 *man/wiwTreeDist.Rd
ade0ea8544defcd9653327459b7d73b0 *man/woodmiceTrees.Rd
9c74c81eeaf5d8af22cd33dab4daffcc *src/CPP_update_combinations.cpp
af632a0cc04bac5ddea01798fb414673 *src/RcppExports.cpp
0b23b4bc5856e5e392f37fbdeee6fd16 *tests/testthat.R
7556a5ff5872e8618d5a686d8231345a *tests/testthat/testbasics.R
35852fb5cedd62189707301415463363 *vignettes/DengueVignette.Rmd
30cd6c14357547e0c533b43e91e6bebd *vignettes/TransmissionTreesVignette.Rmd
812c64cad9dd21830e513593a563a13e *vignettes/figs/BEASTtree_diffs-1.png
f2adcbb735ad00709ee957904e9587e5 *vignettes/figs/BEASTtree_diffs-2.png
4e932c1a7e45f944697fc915fb1d1140 *vignettes/figs/compare_BEAST_to_other_trees-1.png
893b323066823c3656d238ffe0fdd7b2 *vignettes/figs/compare_BEAST_to_other_trees-2.png
312a65b1a650571d28e6df80e68e4b02 *vignettes/figs/compare_BEAST_to_other_trees-3.png
6bad083124bf335ec7fad2a026ada688 *vignettes/figs/compare_trees_NJ_v_ML-1.png
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575751b47f9b65394bfc4d45834d16a9 *vignettes/figs/igraph_tree1-1.png
904a31ee2ac3490c5fce5444a35910d4 *vignettes/figs/make_NJ-1.png
f55c2b82f4ef62c732bbd9dc5ee6e43e *vignettes/figs/plotgroves-1.png
8b09fe081d97dc56045452d774afed75 *vignettes/figs/plotgroves2_readme-1.png
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3580b2a93d1ec7e98ad78e35900371ff *vignettes/figs/plotgroves2_readme-3.png
2f33e2a9f3ea779f10215820ab89f758 *vignettes/figs/plotgroves_readme-1.png
4f7a7b148deee0ea054b5aa6c48e1b0f *vignettes/figs/scree_plot-1.png
c5cf1292c070d8020601d7bc67369866 *vignettes/figs/see_ML_boots-1.png
c5ea5bbe49a79f30d97483cd50d5b6ee *vignettes/figs/see_NJ_boots-1.png
5aaca733b99989ebf5d8d678883488fb *vignettes/figs/trees2_and_3-1.png
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dece84f823670ff0e7257cc643bf068b *vignettes/figs/treescape3d.png
3957a3c2207cd065f1d95cc704ebaa7d *vignettes/figs/treescapeDensiTree.png
32257dc64bf2670d28770a4679f063a7 *vignettes/figs/treescapeTree.png
321eb22c13d23807234aa3a3e21576c1 *vignettes/figs/view_ML-1.png
42d0176109b8a5d69c7522a431ba416d *vignettes/figs/wiwMedTreePlot-1.png
c0a3e54883c3eaae440e7837b50c3eb5 *vignettes/figs/wiw_MDS1000-1.png
2dc4b2ff88519dca3e0f40cf640bf2ab *vignettes/figs/woodmice-tip-emphasis_readme-1.png
6ded541389407dc60cd7a05268579cb2 *vignettes/figs/woodmiceCluster1-1.png
5b107de519c1e028e932ff08f702f968 *vignettes/figs/woodmiceCluster1_readme-1.png
2bb8dcc526533ca618c41786273f1d75 *vignettes/figs/woodmiceMedian-1.png
230041fb0dc2451ff12578b8b418e372 *vignettes/figs/woodmiceMedian_readme-1.png
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618ad3262d3f61e505bc73177adedb02 *vignettes/figs/woodmice_plotTreeDiff-1.png
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a6c38c4de06569b8837882efc8f1d050 *vignettes/figs/woodmice_plotTreeDiff_readme-2.png
645d4cc159f48436d3da1d1bf28fb601 *vignettes/treescape.Rmd
