42cf01722aa409e2f0e7df5b03045098 *DESCRIPTION
9205f61eaeead91361b0d2cdbdbdd995 *NAMESPACE
a0a3ff8c733d13b79d8216338e41a3df *NEWS.md
0c39bf1778e6764463e44554315d81e2 *R/Information.R
5463f006e0e66dbb016a59fe98145e7a *R/Plot3.R
911daea7e9c6666116e866906cc033da *R/RcppExports.R
01dbe3421df9b747ac0a2d4dd5f7d944 *R/TreeDist-package.R
bf7beae4db9290dfc974f1c962ce3db6 *R/cluster_stats.R
1753114fbe186d4b61564a52bde94bc0 *R/kmeanspp.R
7d552b03c5dc20f4f81c8b88c6712056 *R/lap.R
432afcd35f421257adff00c5f467c9c6 *R/median.R
82418c9783536e058f44d7d098e484af *R/parallel.R
1ee138c24b597ce78d592811671dd462 *R/plot.R
c3d5e732caef3ebaec3057bc248d9618 *R/shiny.R
ef777ce8682dbcc21b240adb2e2635bc *R/spectral_clustering.R
6321ee69e672d7191cf192437ace71ba *R/tree_distance.R
d7c7a0d02e0aa71209b375bc7d3a528a *R/tree_distance_info.R
62ac24beddf5b33cafa7661fb23ffce7 *R/tree_distance_kendall-colijn.R
758e1793414cdb16e7ff168d806a008a *R/tree_distance_mast.R
46586bafdc420a97f400c71cf566d5d3 *R/tree_distance_msd.R
26bd440fd58cb4427b28f8438bbd08e2 *R/tree_distance_msi.R
232dc521210553fc6e03bfb4fdb16be2 *R/tree_distance_nni.R
161ccdfcd0e07e63dc6d48f64e166942 *R/tree_distance_nye.R
ea71aa92905dd0f6f894066ac5fddf0d *R/tree_distance_path.R
b76d0090b2ed2f7881738f7a8035f6d2 *R/tree_distance_rf.R
871ac61eb4ab3ed28783801b96b67490 *R/tree_distance_spr.R
7000b9de2469a27871db76010422c38a *R/tree_distance_utilities.R
a882f2e300981001ab2cf41281a72ed8 *R/tree_information.R
ed18161330200288c602ea14a6c748be *R/trustworthiness.R
e99826feb3f524b12db2c811f6bb3c48 *R/zzz.R
57185756f244360214e7331a0c40a53b *build/partial.rdb
ef5be21e6fa44a80e61c0339cb36a7ee *build/vignette.rds
03927a1e3fdfa148b2c3d951a3092fbf *inst/CITATION
7f05b1984a87a6cad1df13bb99aa5679 *inst/REFERENCES.bib
4b6bb3b874df612945a17cd86ed5ed63 *inst/WORDLIST
2a33c016808841801938c7c7b2dcb1cb *inst/apa-old-doi-prefix.csl
089f1839a5a63dcdb64cff7548a27176 *inst/doc/Generalized-RF.R
366aa66cc3b0f5fe9def79dc49210362 *inst/doc/Generalized-RF.Rmd
c9f82433b2fff78d43383c6a3a2d942e *inst/doc/Generalized-RF.html
090d038ed5f9708dd31c33420d97a913 *inst/doc/Robinson-Foulds.R
9b880bcad4beda9c3fa2d143b7372417 *inst/doc/Robinson-Foulds.Rmd
cee8dcd4c451c8cf851b6c3e897f4f68 *inst/doc/Robinson-Foulds.html
ffceb6209b56893ef4ef0f05cfb4aa89 *inst/doc/Using-TreeDist.R
e91341abf688d0829f5997711ce56d67 *inst/doc/Using-TreeDist.Rmd
fc3b04c7a42d3daf2252691723b2c44f *inst/doc/Using-TreeDist.html
383b5f0223ce43794419750f2c139b5b *inst/doc/compare-treesets.R
c5e15257c68800d6d1c6c10d29bac9cd *inst/doc/compare-treesets.Rmd
153503b13a95363ef7923f717d9c656c *inst/doc/compare-treesets.html
6b85879d14a357c57fc47950423a48d6 *inst/doc/different-leaves.R
4e1cbc7f99444589e829d7b7caa32171 *inst/doc/different-leaves.Rmd
b11c228d783506ed0e92934e0c163126 *inst/doc/different-leaves.html
f58163b2815a00c05545ca363b09f2b4 *inst/doc/information.R
774c2d64bd782483acb185172300c92a *inst/doc/information.Rmd
01907327979d10a90efa84a8e93e735a *inst/doc/information.html
f1985bd8b78cf22bf6455a3dc1149558 *inst/doc/landscapes.R
b93f520e73430a8652e49263458121e4 *inst/doc/landscapes.Rmd
b22c25b94c247b2732815f33e7bc9cab *inst/doc/landscapes.html
3bdfb13f72729b8481fc021ac44528d8 *inst/doc/treespace.R
899a304c8e003a4b35bd09bf28585da5 *inst/doc/treespace.Rmd
f9c3909e8458822a12fb6f17e58d8af3 *inst/doc/treespace.html
212b62ba76982a8ca8380007f4c412da *inst/doc/using-distances.R
a32de54f3b825cba811c7988c9357e90 *inst/doc/using-distances.Rmd
16636443974179334a818c4d95ab2bfe *inst/doc/using-distances.html
145fa68e8da376b4a6fb6d129550965f *inst/preamble.tex
07afa08c8db646925381304bc6c64fe7 *inst/treespace/app.R
edf86404a6ac11e2495665d367598ee7 *inst/treespace/www/treespace.css
6db2eeb8d73ffa630c9294a8dc7e5d65 *man/AllSplitPairings.Rd
06afa36e0ac45f09df194a568631e945 *man/CalculateTreeDistance.Rd
f559871551640bf3f15290cf88e654a4 *man/CompareAll.Rd
d06a49a4c6033a162e25ce198baaf35f *man/Entropy.Rd
6e41e7e1d7fdea905be1444b1e2e8303 *man/GeneralizedRF.Rd
8c0d7d0cb2c89211b994c8db2914f0b7 *man/JaccardRobinsonFoulds.Rd
4d8df0a043015ce3a242c251671b80f3 *man/KMeansPP.Rd
2f7d15839e970a3e4f29a43a9fc08442 *man/KendallColijn.Rd
43e8c7e90a1c51528fbd548fdfe7110e *man/LAPJV.Rd
a36b9f2230c661a054027d299a030bfe *man/MASTSize.Rd
06837134da77bda4e3ec74210d7e775a *man/MSTSegments.Rd
1d1258d988d2762731ea0350c5a75951 *man/MapTrees.Rd
60e268b5d141766d1c5da575120e5e49 *man/MappingQuality.Rd
13692079b533dc381ef72ba119a99825 *man/MatchingSplitDistance.Rd
e7da9edb60d21ce9eaf05a148648e54e *man/MeilaVariationOfInformation.Rd
71f710d56e8122444a65033ed56d1598 *man/NNIDist.Rd
42d3e3c7ede8a367aba5534d3afc6043 *man/NormalizeInfo.Rd
469c47887af247ae54be25e46df8a2d9 *man/NyeSimilarity.Rd
fe82fcea92698be95046a8d2b915a401 *man/PathDist.Rd
42741446e983f47c2d86edab04d271c1 *man/Plot3.Rd
652ac880195a50a4f5df81df6016a3df *man/ReportMatching.Rd
2aada8efe23f2aeb06ab9e75f561eca3 *man/Robinson-Foulds.Rd
469c70a5d0093bc67a03a72f564fe514 *man/SPRDist.Rd
3ee533f9020235de3e0448484e261576 *man/SpectralEigens.Rd
05945cf18af3df04a080320f01b72121 *man/SplitEntropy.Rd
3dd1bbc61625edfa7f827a5d380eb2c1 *man/SplitSharedInformation.Rd
e2de684a3ea212ad7800aae53b70056b *man/SplitsCompatible.Rd
49438391828a6e8a04f51a1de3c3d1be *man/StartParallel.Rd
fb4c7fc2fed16d9b04e6eb1b67e7cfd2 *man/TreeDist-package.Rd
08cdd89bccc00d0647b70d953facce8c *man/TreeDistPlot.Rd
e77ed1439afcf706ffdb05e7a3a42281 *man/TreeDistance.Rd
86ba10edbf6d49c840c35b6ebbc0a3b1 *man/TreeInfo.Rd
8e751ccacd038683af5bcb0f51c348c1 *man/VisualizeMatching.Rd
398ce92bc0f0e0f46b7649c9a0e00032 *man/cluster-statistics.Rd
4e2874c02db85ccb6b3dde6bcecd11b7 *man/dot-MASTSizeEdges.Rd
086ffe7e607ff2a6d620e4cf0ac15278 *man/dot-PairMean.Rd
25e00c56d215b9c5f5cefdea2493f0fd *man/dot-TreeDistance.Rd
25d16901c4a1fb22de7899ea45ff2042 *man/figures/CID_talk.png
7ecf980a687f6890b9879ee63cdc9ed1 *man/median.multiPhylo.Rd
fb43925a2d2aebef5be2a54fb55a4c8d *src/RcppExports.cpp
e13c698a64f8c24437151b88acc0af82 *src/day_1985.cpp
eba03345b995cc7aef9c73d3152c6148 *src/information.h
08396e3ab959904d9f3911fb02ee62e3 *src/ints.h
90deeeb25e38b852bd3eb5c12fe28e86 *src/lap.cpp
caeb7d3b090ca43fb82114de21cf8e2d *src/mast.cpp
bcf121edadf430f5fd2a790a2e67bb82 *src/nni_distance.cpp
35175833eba91879f96cbdb7d5a13665 *src/tree_distance_functions.cpp
aa852c99d8064e25bd42d700b045c8e7 *src/tree_distances.cpp
36212e996fb04aae1e29a8a99f2f36d8 *src/tree_distances.h
9a31d041be39e837851bbb82191d3385 *tests/benchmark/benchmark.R
29345163f9d102a663ebca6b1fce1a26 *tests/figs/plot-r/jrf-vm-matchzeros-false.svg
68bef2579d43264e2249e0fd70aaca66 *tests/figs/plot-r/rf-collapse-a-node.svg
6179341cc462226da83eaaa168f54cc4 *tests/figs/plot-r/rf-collapse-and-change.svg
9c531bfc87996b30f11a4e944a1f799f *tests/figs/plot-r/rf-vm-single-splits-plainedges.svg
2b4d5c8d59ec486190918ac9c114d874 *tests/figs/plot-r/test-lc-letters.svg
2b4d5c8d59ec486190918ac9c114d874 *tests/figs/plot-r/test-uc-letters.svg
b7c6a8ca0998adbae7ee32d413cc278d *tests/figs/plot-r/test-vm.svg
f189b401af1c88c22d34b3fc5c681802 *tests/figs/plot-r/test-vmr.svg
58c9950c230e825dcddd473a4b5c3fb4 *tests/figs/plot-r/test-with-space.svg
2b4d5c8d59ec486190918ac9c114d874 *tests/figs/plot-r/test-without-space.svg
13dbb23eee05085cc2bd4e4ec04db57e *tests/figs/plot-r/visualize-mci-matching.svg
473e3d09cce37f127cb654c38271f387 *tests/spelling.R
3b5b6e033dd2356df38bad8d45c71f3d *tests/testthat.R
c9e342d017230826f73f252d22b09c47 *tests/testthat/_snaps/Plot3/plotting-order.svg
29bb533b5dc95bd6418f06b761a7568a *tests/testthat/_snaps/Plot3/simple-plot.svg
849c7b9ccf5b10f3c3605ecd97a6d382 *tests/testthat/_snaps/plot/jrf-vm-matchzeros-false.svg
31462555ba0a5ceba37f92dbe794962d *tests/testthat/_snaps/plot/mst-example-plot.svg
8e15b95404d6497f6ebcde1f3a28270a *tests/testthat/_snaps/plot/rf-collapse-a-node.svg
5661921a2ba84cc015b0ac7d1a83d731 *tests/testthat/_snaps/plot/rf-collapse-and-change.svg
6ae39719e5fffa01dae92136a3d83533 *tests/testthat/_snaps/plot/rf-vm-single-splits-plainedges.svg
b161676f476f014e35968ac72a6f1439 *tests/testthat/_snaps/plot/test-lc-letters.svg
b161676f476f014e35968ac72a6f1439 *tests/testthat/_snaps/plot/test-uc-letters.svg
8497e3c0490d1df8e23562a305fdeaa6 *tests/testthat/_snaps/plot/test-vm.svg
730f98e35b754c3cd59dcf5bf27febb6 *tests/testthat/_snaps/plot/test-vmr.svg
b5b1f3736dc3ba5b9880067a9fbf1a6e *tests/testthat/_snaps/plot/test-with-space.svg
b161676f476f014e35968ac72a6f1439 *tests/testthat/_snaps/plot/test-without-space.svg
dbe86120da1514a95f3870ee2db6286d *tests/testthat/_snaps/plot/visualize-mci-matching.svg
28c8a27588cd95ae91562792aec21714 *tests/testthat/test-64.R
296910280418d0b441dceb679c93124a *tests/testthat/test-Plot3.R
eb3444a0ee98426ae9e609ddb64209ad *tests/testthat/test-cluster_stats.R
7f3fdd19b9d80afc4ba1bcf22ba85c1f *tests/testthat/test-day_1985.cpp.r
5f4fe2be0d7cc7d2526ff652f2412d55 *tests/testthat/test-different-tips.R
c71e327813b158faccbed98d735e31c7 *tests/testthat/test-information.R
a333f64bbd912c4f2275c347b6cc96d4 *tests/testthat/test-kmeanspp.R
63e49db3ef5f791c35221f06b2fcd272 *tests/testthat/test-lap.R
2980a79c19abc25c97ee20948b35de65 *tests/testthat/test-mast.R
f2da9f08993b721bc4bcffcb33070126 *tests/testthat/test-median.R
86b355a4bcef8076d56dea724ff6cf66 *tests/testthat/test-parallel.R
6f851d2b90854a084bda9473ddfea1e4 *tests/testthat/test-plot.R
838b49dca8fed283a0c16d2064449a5d *tests/testthat/test-real-data.R
1a223bc3c25cc5c095fb63c6efea70d3 *tests/testthat/test-split_info.R
a290a174d51004baaa6e47ca003c69a8 *tests/testthat/test-tree_distance.R
fbc4141cbc3b376296f6df9916da4864 *tests/testthat/test-tree_distance_kc.R
06ac3998460351f6c672c0810ab79f03 *tests/testthat/test-tree_distance_nni.R
394dfcbb4b896212fb28a3480d94df8e *tests/testthat/test-tree_distance_path.R
e5bb90a66911bfa40dacd72add366e43 *tests/testthat/test-tree_distance_spr.R
303b7f3b3146bd34ef84bddf21881841 *tests/testthat/test-tree_distance_utilities.R
d89089a344d87aa039668f34b1b4cf64 *tests/testthat/test-tree_information.R
ba735636133efd2685d683c175d7dd04 *tests/testthat/test-tree_shape.R
9f2f44e45bdde60357853ff5094d58e8 *tests/testthat/test-trustworthiness.R
382c1a5629c126be1c94483496086b3c *vignettes/Batch1.svg
e0e3412ce7f6b9dffb6947b85f442214 *vignettes/Batch2.svg
25d16901c4a1fb22de7899ea45ff2042 *vignettes/CID_talk.png
366aa66cc3b0f5fe9def79dc49210362 *vignettes/Generalized-RF.Rmd
9b880bcad4beda9c3fa2d143b7372417 *vignettes/Robinson-Foulds.Rmd
e91341abf688d0829f5997711ce56d67 *vignettes/Using-TreeDist.Rmd
c5e15257c68800d6d1c6c10d29bac9cd *vignettes/compare-treesets.Rmd
4e1cbc7f99444589e829d7b7caa32171 *vignettes/different-leaves.Rmd
774c2d64bd782483acb185172300c92a *vignettes/information.Rmd
b93f520e73430a8652e49263458121e4 *vignettes/landscapes.Rmd
899a304c8e003a4b35bd09bf28585da5 *vignettes/treespace.Rmd
a32de54f3b825cba811c7988c9357e90 *vignettes/using-distances.Rmd
