ae2e120abbb7f9f402f4eee30a7ec9ec *DESCRIPTION
bdf30dca0ba69e7eed76b2bea2adf78b *NAMESPACE
fb94bcdabc6b239ad1b35c9c8e38e115 *NEWS.md
113de6da4f5247e2cba737d105cd9ce2 *R/CompareQuartets.R
22345224529a2df742f5b06399f02a4a *R/Metrics.R
c783c8015f61a2cc88948ff5d5ed8d95 *R/PartitionDistance.R
f0f1123ff170415436774477517b93d8 *R/Quartet-package.R
d56dcc179e1f0cc5eca1b464518054a1 *R/QuartetDistance.R
4b760cfd5cd53b21585e5d89ebc15e50 *R/RcppExports.R
04c5224f77dd4d82f2182a5ba7606012 *R/ResolvedQuartets.R
bae5f199e5798a6aba50fceb842ab393 *R/TernaryPoints.R
8d474ea21a861b3da7d4b1a991b3492b *R/VisualizeQuartets.R
387911d9f8b439a7e3bc48baf917db19 *R/data.R
0e6e47704d2436d4d61def21365f94a5 *R/tqDist.r
8cfb84955613a95ad41662264df370da *R/zzz.R
89f6fa7d9956070822420c888cb878f1 *README.md
256a987ff5cd60b9cd74ceccd2585702 *build/partial.rdb
9d0cdb9fce3015d9697ef77b4d578b1f *build/vignette.rds
4610a2fed56c2bbaec42813f44efea7b *data/sq_trees.rda
8652e28089f9113045a3d0accc60751d *inst/CITATION
8b4bfa19f14e9b13cacf2295139ba78e *inst/Get_stuck_in.md
3033c47679f4e9fec152a0bd869d51ae *inst/REFERENCES.bib
ecac2124b8971e986441217efa3bcaa8 *inst/WORDLIST
0491ebcca820fc95d7459984ca97db17 *inst/doc/Quartet-Distance.R
41b01a7af93e16568d1185b4e5774b8a *inst/doc/Quartet-Distance.Rmd
1ca8054921db0d518ab8c33c477ad517 *inst/doc/Quartet-Distance.pdf
6489077843c0d70990b65822ee594f63 *inst/doc/Using-Quartet.R
49d82cb690dedf29131abc20025f4f83 *inst/doc/Using-Quartet.Rmd
367a16e1450d7b194f2a19c9c4f4dc5a *inst/doc/Using-Quartet.pdf
145fa68e8da376b4a6fb6d129550965f *inst/preamble.tex
8cd8d2957f7076b88e668e5cbd30462b *inst/trees/all_quartets.new
c77e7e425ce61ad6f4794aa761a96b58 *inst/trees/five_trees.new
866430511e1922de3d699d2bc8d4312f *inst/trees/none.new
27fcf4d2ce88d537dfc7123af31bd851 *inst/trees/one_quartet_twice.new
b149fb81dd30a3ca2c912a05a735af61 *inst/trees/quartet1.new
1dca61cfcdee4fe1b6bdbd31dbdf302b *inst/trees/quartet2.new
a459cbb218d1a152e7b4b61593781063 *inst/trees/quartet_unresolved.new
94c503ebf10649687ebe687dc809e755 *inst/trees/test_tree1.new
72fab1d3604a4bb1bcaf30828a198bb8 *inst/trees/test_tree2.new
70ba65b7a40de93c0b14b7efa0eb0d31 *inst/trees/test_tree3.new
a33e2325f0f8362f37098fd0cfccdf69 *inst/trees/test_tree4.new
5c9b0117aabf90e69f83dfa6caa0b662 *inst/trees/tree_ab-c.new
24c6536d3c734d1ad27d098177e89376 *inst/trees/tree_ac-b.new
453fc4a3acddba283e8f4630145835a6 *inst/trees/two_quartets.new
68aa19327a16788844c103ccdb30b5c3 *inst/trees/two_trees.new
9a6eaab8ddeca800b66b85a3ed869d6a *inst/trees/unresolved1.new
69374825cf9444769488fb0f2817c357 *inst/trees/unresolved2.new
a546a5f909b41a448e80f09a63b8d010 *inst/trees/unresolved_list.new
717aecdd0f6e1e1d34c4ee0cb94100fb *man/AllQuartets.Rd
ebc66810926bfbf0fd9c1e3ccbb57ac4 *man/CompareQuartets.Rd
0d34fc3283d88f8092daa8e4772e1187 *man/CompareQuartetsMulti.Rd
ce4d3cebfb423cb5e6b7fa9adc14fd66 *man/CompareSplits.Rd
ecca34439b010ae6ca2d2ec85334d40d *man/Distances.Rd
e541725dcc7b2615d265b16875fcd3d0 *man/PairSharedQuartetStatus.Rd
163bffe610e8f324379c385d46a34407 *man/PairSharedSplitStatus.Rd
1192351e615f032aabc9cf3ced8f72f5 *man/PlotQuartet.Rd
2ec38a47993860b600ecba8857652451 *man/Quartet-package.Rd
666b561a82459ce6c039489a6c44dbf4 *man/QuartetPoints.Rd
e9227b52e9e9685f59cffaa03513a3a2 *man/QuartetState.Rd
72c14bf56256fa5a24a469e826f43921 *man/QuartetStatus.Rd
1dfdbf7ddcc9c8841795b43f8531ac11 *man/ResolvedQuartets.Rd
904a4cb1c5cfbf5a6f838877d42a972f *man/SimilarityMetrics.Rd
9e8d18ff1c46721564f17a65b2f2294d *man/SplitStatus.Rd
1f8c1c5a90ecba0345fca68b351af3db *man/SymmetricDifferenceLineEnds.Rd
479018256c11f2543ed2f806e3f6939c *man/TQDist.Rd
adc9ffb0bb6edd8355005668f969c093 *man/TQFile.Rd
b560188db966d013cce6313b17c0450d *man/ValidateQuartetFile.Rd
2422f54f45d416174bc2cb6debd97474 *man/VisualizeQuartets.Rd
1355910e0f4aa30e0542575a89dd4f4c *man/dot-AddSlice.Rd
9fa56cd91a47b8f0a73fac002c28fda2 *man/dot-CheckSize.Rd
68c21042f4b57ab3e63dcd3ef5af5305 *man/dot-NormalizeStatus.Rd
316a35e454ab18d0d6306eeb05138a6f *man/dot-StatusToMatrix.Rd
643fb8c1764c6c35b95e1a9e0a84cb36 *man/sq_trees.Rd
0f3eb575af17387f30a246788c5092a9 *man/tqdist_QuartetDistance.Rd
7a1810615a0231f6352b1ea089dbc72b *src/AbstractDistanceCalculator.cpp
e11330ebbd1295da9af918236f64a9bd *src/AbstractDistanceCalculator.h
b2ab07e0174f47d6ede79c876cd3c83f *src/AllQuartets.cpp
bd963ed61d0b0101bcd60ee3975345a4 *src/EdgeParser.cpp
5a445d40d8efad503bca4a21b2e937cc *src/HDT.cpp
183de2c5f83f773dddf06f9dac69552d *src/HDTCountingCCToC.cpp
41cd6e024e3db8a6c12da91001a3380c *src/HDTCountingCTransform.cpp
d261b94353ad5a05c8ce218fac4b54ce *src/HDTCountingG.cpp
9b555232a6976177cd0e7c214b1a3c4d *src/HDTCountingIGToC.cpp
e7ff1c0cd71dadce5a0ac249131e32e9 *src/HDTCountingLeaf.cpp
e4a750761b5dcf73d88db33936d198f2 *src/HDTFactory.cpp
6b00ab7b0d11b892e535e739d3e1f44f *src/HDTListUtils.cpp
7ec254fcd5912e137e0f3d965f261693 *src/NewickParser.cpp
228927a55512a21a73918a9df60508dd *src/QuartetDistanceCalculator.cpp
8c62afd3f6a0f73f784b0159cea25b35 *src/QuartetDistanceCalculator.h
fca3bf90d6710b27f237fe5d18915d34 *src/RcppExports.cpp
ca0b0884e12bffdfbadf0beae80dfcc2 *src/RootedTree.cpp
2997b46256907d7476283f584c2c2fe0 *src/RootedTreeFactory.cpp
5d0aad726e97548e2c5b10fe6a0b1ef1 *src/TripletDistanceCalculator.cpp
6b7863db62ca71949dd871066822fe2f *src/TripletDistanceCalculator.h
d8c9c57ab3bafe0eda21a30b1750d8df *src/counting_linked_list.h
ebf9c9929a1b3eb80b03ab7535b87a6d *src/counting_linked_list_num_only.h
d1a9c365430e73b2bd34655933e411cf *src/edge_parser.h
e2861a83ce5e617a44fd7733cc79bc3d *src/hdt.h
e947704ae36b3fe86509311137e433c4 *src/hdt_factory.h
0a869dc1a9de30b7d398b26ea7de412f *src/int_stuff.cpp
99f85bbc800a01299504339c2425f0fb *src/int_stuff.h
770a5874ce678207b32a85686b9ac27f *src/memory_allocator.h
1f6b14d6adb436e90de6c71a44c96a89 *src/newick_parser.h
ce775ecb23b0a9f1eaef305593426685 *src/quartet_calc.h
dcfd3b4ace3543eb4fc03c35937fa430 *src/rQuartetDist.cpp
3162e4ae408806a2274a4acb55b5f6ac *src/rTripletDist.cpp
bfb78b07911799ac87097c3a02b2f832 *src/rooted_tree.h
09e9e5bf70fde2212aa83d74a1d14f2f *src/rooted_tree_factory.h
36376e6d90437cf1768d906ae187f9ba *src/templated_linked_list.h
b4f38b2477748217cb03d7ceaf8006a7 *src/triplet_calc.h
612cd26c7c4cbc45fe57f6103aff72be *src/unrooted_tree.h
9f004e030d7afdc841db44bbaebc1402 *src/util.h
66380a4702500feef2541d252e7c712f *tests/figs/deps.txt
f61f3d9162631305f001e4d3563199d0 *tests/figs/quartetdistance-r/plotquartet-gain.svg
0d4fab4a9d925812b66067e55183c859 *tests/figs/quartetdistance-r/plotquartet-one-star.svg
f60677d1c56338c330b4b5e2d39f3d7b *tests/figs/quartetdistance-r/plotquartet.svg
8f6554d1297f4aa34d877520321a9b6a *tests/figs/vq-label.svg
3caea4d21798ca4344a5c0013cc7cb51 *tests/figs/vq-size.svg
46a104a9ec4348d3dd7b31b288f5156e *tests/figs/vq-tworow.svg
25657dabe5ea160a5b56d0e5f8cf330f *tests/testthat.R
b848f2a3966c3a7f83938741d01f371c *tests/testthat/test-1-tqdist.R
3e33a05a50a36640d64307928562c9c9 *tests/testthat/test-AllQuartets.R
ef0da707a4c26243a310bbd43d407eb2 *tests/testthat/test-CompareQuartets.R
11fc6bd9bedd5f012dba4d0a361f079c *tests/testthat/test-PartitionDistance.R
9ab3e4b97eb16f6af8d4bb73b0b590cd *tests/testthat/test-QuartetDistance.R
e91d9b1961bb735792ae49b2df1b6d52 *tests/testthat/test-QuartetStates.R
d97f8fc6b2682ff0743e12fc9a8f4983 *tests/testthat/test-ResolvedQuartets.R
9799251c2f93b764fd789a361bcecc42 *tests/testthat/test-TernaryPoints.R
fd4b8fb8248e5fc7efd803a6bcd56500 *tests/testthat/test-VisualizeQuartet.R
88de6ba0eed2fd618dae19f134511b6e *tests/testthat/test-ZZZ-Metrics.R
41b01a7af93e16568d1185b4e5774b8a *vignettes/Quartet-Distance.Rmd
49d82cb690dedf29131abc20025f4f83 *vignettes/Using-Quartet.Rmd
