8fc5a56bba1ea50241b33a58444492dd *DESCRIPTION
aeb3d3525f92d4b2ae0659a9d9cb593b *LICENSE
099883efcf7d60648b4e977982ca4655 *NAMESPACE
3916ba70bc0aaf1459d7c57df66bc787 *NEWS.md
8dceb1e086ad63ec5372ebc103b0e176 *R/RcppExports.R
4d37f548893c52bcb32eaaa096e830ef *R/data.R
5d53b69b4abe1eff03d5ac9917a733a0 *R/findGroves.R
19e5b601fe7bef51c650444dce411532 *R/makeCollapsedTree.R
1c6c91f94c22f81afbb6c0fc8fe7a550 *R/medTree.R
72cc870266b3de5e5ebcf3f583a05360 *R/metrics.R
76eb5cba87cc53f5570e3b60ea2cc020 *R/plotGroves.R
b03c7007a4efee406163838cc7261ad7 *R/plotTreeDiff.R
11e2391453b92e3a1673a8b7ea5a9860 *R/relatedTreeDist.R
d8de7c750f8a5b030cd35d6a574606b6 *R/servers.R
55315edad60b30d42cea086ed3f86069 *R/simulateIndTree.R
fa5a1612b3314a6a8d184d9a4b68b909 *R/tipsMRCAdepths.R
dd6c1e3683a5ae261dfd5b0140079e47 *R/transmissionTrees.R
556b3536d56a0be37690a8f361755c9e *R/treeConcordance.R
ecb652769006fd509eb9977e50e11aff *R/treespace.R
c87f1a91e6e785ecd76e339c92e778d4 *README.md
e1b22290950bcb34606d112f7db6d7c8 *build/vignette.rds
b22dd6d8a0aa612718b4cbbd9d4ccf16 *data/DengueBEASTMCC.RData
bbf91b415237e7ab1114fcf7cc54ad6a *data/DengueSeqs.RData
bcb388cef1ad20dbc0fbb98ba3812581 *data/DengueTrees.RData
6e65cb60b2f3d343d8a65a515e7669ec *data/fluTrees.RData
c30fe0c101e1d52f45a2faee4fc7b2de *data/woodmiceTrees.RData
1c689bee9bee6380adc319ae8a0e936d *inst/CITATION
ccc0c4eaa5b19a2410959119408352a7 *inst/doc/DengueVignette.Rmd
cfc9778d8bb83617d011ce7d46d9a3ae *inst/doc/DengueVignette.html
8f0b830cab0b2af3938a2048102d7dad *inst/doc/TransmissionTreesVignette.Rmd
79809c41145459cad04cce0a17352cb1 *inst/doc/TransmissionTreesVignette.html
a6ece2a588655a2455c317d9c8369f34 *inst/doc/introduction.Rmd
c67f62fac451208f667b86804d19a956 *inst/doc/introduction.html
59a86954ee2d976dcd7130157d0f0e4f *inst/doc/tipCategories.Rmd
e55b919b78bdf1f9a0d70420f0a93fc1 *inst/doc/tipCategories.html
6d890be7cf87406d84b7c855acede2a3 *inst/shiny/server.R
244f3ef75e8f6a1a325d980df84d949e *inst/shiny/ui.R
6c4711607de1791415c5b50511e84ad3 *inst/shiny/www/bootstrap.simplex.css
dc516afa494d9430a94c9fb23fc6aa97 *inst/shiny/www/html/help.html
d8684ae68cfdcc9049f1ff417ce3c3eb *inst/shiny/www/img/line.png
c3d0c3d454439e0980a1a2af2b355ca8 *inst/shiny/www/img/logo.png
96abc4b41da8cafa6f565bf5604b460c *inst/shiny/www/styles.css
25063899f80ddcf7167f4dcf50d967b6 *man/DengueBEASTMCC.Rd
db86fab8546fe4f1a8a5344cacc479a4 *man/DengueSeqs.Rd
ac8041e29513ad453042ce6610a8a3f8 *man/DengueTrees.Rd
1d9df35a4f643fadccd2955e5f601539 *man/dot-render.server.info.Rd
d91fae21ed96eac0a2b4fc01f01aab16 *man/findGroves.Rd
d31450f6795104b1824e3f36d3161d3f *man/findMRCIs.Rd
26c062f89544223996e8ddbd2344a961 *man/fluTrees.Rd
cb81f4960674bf2be0843a85e03e820b *man/linearMrca.Rd
6197f441e80bf95789962d6ea87c9816 *man/makeCollapsedTree.Rd
63f97ae59baabc9b97ac4e0cc6ddbc3c *man/medTree.Rd
a1118fda772a5485bb63b6fc3af803e1 *man/multiDist.Rd
d6a69df165998b9bcd3831e8b892a259 *man/plotGroves.Rd
6157cbc706f868e6e5ad4b49173be489 *man/plotGrovesD3.Rd
94f2d3d8c6ff52a0ba7c206fee01e05f *man/plotTreeDiff.Rd
b271223c4312636d92e9a77b7f79d6c4 *man/refTreeDist.Rd
bf25019135537e42d3aa4af7cbc76dac *man/relatedTreeDist.Rd
058f879513aea54cb1fe8c82887c5d17 *man/simulateIndTree.Rd
6548fe1bf09ef8ddd395dc54e16e2d4f *man/tipDiff.Rd
7325336bf6883e4a6cb6d8045e512fde *man/tipsMRCAdepths.Rd
4109e7caade80c691a4e9f43225a0833 *man/treeConcordance.Rd
e4626a424cc2080ce45d0750fe4d32ba *man/treeDist.Rd
742f57ca11cd2a2503ee368fabd01843 *man/treeVec.Rd
6e03281d718c305872cab15b67f7b6f4 *man/treespace.Rd
7273743581b21b19bb6c509b26dc087c *man/treespaceServer.Rd
a77475898bc5833024c09c0dc37869db *man/wiwMedTree.Rd
81d99a24989b6bd9bc217ca56b1e1bb1 *man/wiwTreeDist.Rd
6f60c64907da36482b90848304bd45fe *man/woodmiceTrees.Rd
9c74c81eeaf5d8af22cd33dab4daffcc *src/CPP_update_combinations.cpp
12f945d54965352b0b7c04cbe8cc5276 *src/RcppExports.cpp
4328a6f98f7e19fdb142fa67fac002ec *tests/testthat.R
78173fb48b5af237b101f57bcd812479 *tests/testthat/testbasics.R
ccc0c4eaa5b19a2410959119408352a7 *vignettes/DengueVignette.Rmd
8f0b830cab0b2af3938a2048102d7dad *vignettes/TransmissionTreesVignette.Rmd
a6ece2a588655a2455c317d9c8369f34 *vignettes/introduction.Rmd
59a86954ee2d976dcd7130157d0f0e4f *vignettes/tipCategories.Rmd
