4516eda8b253c28f986efcfd678f8234 *DESCRIPTION
871ca2d3fe353103231b918e5933e374 *NAMESPACE
436e49cf155cb96fc5a9404d09303e08 *R/ChangeBrlen.R
d44b6b7d8780fde0afdad9127db44602 *R/FindSpnodeDownGenenode.R
526ad3ea9b3ec2b3ec882430377874c0 *R/ancandtime.R
c8fd497611202d3ec03de2dc02cf4361 *R/ancestor.R
081a2661b6f04486e1a62016b3e71aeb *R/bootstrap.R
442db5d504a9cd556af33113cf189f69 *R/bootstrap.mulgene.R
4b2657f05dda30fa77d858837433432a *R/change.root.R
cd453e31a30b585f92de0e0536d48468 *R/coal.sptree.R
19b0c1e701520d10278d7b2e5d8458b9 *R/coaltime.R
73b33abae28b492f4e9f459b0c1db1f5 *R/consense.R
b62cbf5e3216564d44b64cb6448dadcf *R/del.node.R
f2b7b5eeebb10559fb72cd6fb7e1176a *R/firstlib.R
14a8693901989cf85227932c0303215e *R/genetree.vector.R
23008735ac660e84a39bd5118d20cb11 *R/getcoaltime.R
50f649cd3e60ce73e2b3111b1474147b *R/getncoal.R
cda231dfdc36d17504c927d946c2bb50 *R/is.clock.R
ef286b8d9606cc17981efcfbfd463331 *R/is.rootedtree.R
992bce1dc46dfae38e0b24c07b8956f6 *R/maxtree.R
b613285224886a26cbb63e5debdad66e *R/mrca.2nodes.R
b479a3190a297020a864ce82582be6f2 *R/mrca.nodes.R
eb97f31fdcb7268c9ca3c0f59f0cbe20 *R/mutation_exp.R
3f47707851d13768ccbae64689c93d6d *R/name2node.R
fca6b3ea194a37f9b9490ac85b0f5903 *R/noclock2clock.R
035b8288a7944e1af86544c3522067e7 *R/node.height.R
7f89e006c4f0551b5dde21b65e1a6fd0 *R/node2name.R
2b72a88b07436cf64488a0b033fe07dd *R/offspring.nodes.R
a17560764e89a71fd842cd99fed61ff7 *R/offspring.nodes.string.R
8bb8f7ab728206ec2000127aa0369cae *R/offspring.species.R
bf8597bc48a4ddaca72aae38c3d5c510 *R/pair.dist.R
40d69540dcaa739dc74a7ff282c95c5d *R/pair.dist.dna.R
5414b11e47fa5f50efb19e4cadf2ffc9 *R/pair.dist.mulseq.R
bc0f4491b2b55c833250906767cb0529 *R/partition.tree.R
40ed73206c1839b367651da717f6fae3 *R/plottree.R
f93793c217fa9f3a8e55bf7ed177d957 *R/popsize.R
b5bc53c865bbfc3c45611f98928ea952 *R/populationMutation.R
4ea3d275958d17ca5b275372673e2919 *R/postdist.tree.R
15c153bafeb4c044aec61107e5916a1a *R/rank.nodes.R
52bce075f46da6d91c4772a637d66a07 *R/rannalandyang.R
1b89e17873d52e4ba4d7db76346c82a4 *R/rdirichlet.R
9f7b5342ba7f43d20b9b60e8a7fdc2ef *R/read.dna.seq.R
b7ec8801fd77611006eb58511aaaf037 *R/read.tree.nodes.R
858bd859d2a836718ac003ea4f89ca38 *R/read.tree.string.R
8cf9f0a1fe078f918f4c0135854a67f3 *R/root.tree.R
6dc3088b3d773feb03cd82f174ecd571 *R/rootoftree.R
76e28f53ef36828878cfcc2e618d3720 *R/sctree.R
567fb4dbceee03f8616f869026da2744 *R/sim.coaltree.R
650235ce416681713cf023eb59527af5 *R/sim.coaltree.sp.R
86282fd24c5966c79bc2f42aa2041c48 *R/sim.coaltree.sp.mu.R
dcc2e7e21fafe62956ecc305a52c8c09 *R/sim.dna.R
346962fb6e01057e1e07b2f2cc9523b0 *R/simSeqfromSp.R
bfd35e1ef72afaeb4719fbbbfa00e87d *R/simnucleotide.R
1d64ee36cc7809a4eb01480337898252 *R/site.pattern.R
defa57ac54d8b7af5f83121dacf921ff *R/sortmat.R
889455fd8cfa832c0c2d0f4c656a8b34 *R/species.name.R
f30bc5be4c3c0f7629de72f33eb63e78 *R/spstructure.R
418551afac5282642d981b9911afbda6 *R/star.sptree.R
df655e780b3f3f347de5eb15176458b0 *R/steac.sptree.R
eb0fae80881191ff62f40c5c5ffc0005 *R/subtree.R
75e54920d5e18d9cb977b137fa8824d4 *R/subtree.length.R
d9407d7c63cc61120b25d02c9239a78d *R/swap.nodes.R
63b156963965a3f2b6ac3e612a45b409 *R/treedist.R
6e2724685e0eb1673a0e3e6e73d463c5 *R/tripleProb.R
668514eb2b0761744c05c1b0ea48a459 *R/tripleloglike.R
2f00a9b5cdb22059d7546038273c0834 *R/triplenumber.R
93a0d19b82777e4ea61182af66ca1697 *R/triplepara.R
0c56557f4ad771dcfa40132381b4fcf4 *R/unroottree.R
c1ae74bcba64455384d9501eeae5ca63 *R/upgma.R
faf131758d8c6276e1384c1020e061af *R/write.dna.R
53ad1b9bceddc11c8cff392e194d7909 *R/write.subtree.R
9dfa48d216a283ff1120e09491ff8fb4 *R/write.tree.string.R
74ba9651f603f11fcdef5ce77a9559f6 *data/rooted.tree.R
b41d159c4b78ef6f3938ab9bf05b3632 *data/sptree.R
6ab4f7dbe085ca0c901b4d43067913c0 *data/unrooted.tree.R
da00e317fbabc537d9357edea1622d7c *man/ChangeBrlen.rd
12ea1db83d5269a992c27538b5645502 *man/FindSpnodeDownGenenode.rd
fe6239b2457743e5b93a5a23dfd944f1 *man/ancandtime.Rd
396abd271b55ef48c36f2d24cfd3f63b *man/ancestor.Rd
75a4efde503e4692d22676006169a382 *man/bootstrap.Rd
f5b0485cda78c6cd08c45c5fb584f249 *man/bootstrap.mulgene.Rd
9b663f6b034eb20814176b5e97fca574 *man/change.root.Rd
1cc89bd449db2dbee70d300d8584aaea *man/coal.sptree.Rd
2e38a9b94c421d2bebedcbf55155bdf8 *man/coaltime.Rd
16fb3f5fd22305d50db7272292c93617 *man/consense.Rd
80471ceabce2c6eb822992039faa5b10 *man/del.node.Rd
d625fb8944dc53a3f778b52d242725d1 *man/genetree.vector.Rd
b8a57f42ba124503b5a8f7ba95c665cd *man/getcoaltime.Rd
816f71d19c29d4ff5b1340d894abf5e8 *man/getncoal.Rd
fe71a518a122e0f68bda20fa528b107a *man/is.clock.Rd
8c219f9c4de951d97b6de65f6f3a8f9b *man/is.rootedtree.Rd
1ea4b373877d35e86026d95a1016aecf *man/maxtree.Rd
4ba45848596aadcb6b04883c5d900615 *man/mrca.2nodes.Rd
b470c9f625b315f609a20768317593ae *man/mrca.nodes.Rd
df47506c2d6d669ce8555954959a3c4b *man/mutation_exp.rd
f06df514a2b6cf464d393fbb5d34bc82 *man/name2node.Rd
6b3244ee115ea8a19780e57280ae4468 *man/noclock2clock.Rd
16c44d30b6235467c6df0f570edab19f *man/node.height.Rd
db2657dd6a184a0f1550d1631a580073 *man/node2name.Rd
af309874dc6b19721d0e7ded770d8964 *man/offspring.nodes.Rd
9930cfb3d9917f5c6ec151d5f4931e04 *man/offspring.nodes.string.Rd
f527f5251b31b3395e6c9fa8e94b62a9 *man/offspring.species.Rd
ca2dbd5217998e76801cfa8a38a9e1b4 *man/pair.dist.Rd
b248a239b527436d3e796893dd8f5652 *man/pair.dist.dna.Rd
141cc4d5d7ce949289521daee5c5e74d *man/pair.dist.mulseq.Rd
ba5bde54495dcbb6bf83e7603574a76e *man/partition.tree.Rd
226ae1474e0fdf14afdf47778a2d4f12 *man/phybase-package.Rd
b7e3f7b70f81a3c7681a01989fb03135 *man/plottree.Rd
7e2eed56e9072636cab1d7e6f9e3b6c8 *man/popsize.Rd
c3d35746345c58a09384428727006e9e *man/populationMutation.rd
eefe9b968b6dcfb19ea03236f1c10599 *man/postdist.tree.Rd
31d03d2677ebcf2464644271d34b098b *man/rank.nodes.Rd
c926005572b77ef30eea66baf16bafcd *man/rannalandyang.Rd
43b1323d02af5da60015fb99f0fb5147 *man/rdirichlet.Rd
b766cd1101977c10de0adb073f30dfa4 *man/read.dna.seq.Rd
7a298eedb55db7d7257bce0dc737e62c *man/read.tree.nodes.Rd
8d95faa116fdf8cb16ada240f64feb8a *man/read.tree.string.Rd
acd03231827501d345dec9b9613c45be *man/root.tree.Rd
e2103533f5441c157f09047f5f4e4c4f *man/rooted.tree.Rd
dc39096d228330cd1e5db47901733b60 *man/rootoftree.Rd
3c3a8d00ef07c8307de223efc5287cf0 *man/sctree.Rd
03177cf0cd19fbce7dc2298577052eb4 *man/sim.coaltree.Rd
e0d0b76ff6798820cde7a00153192e30 *man/sim.coaltree.sp.Rd
2a76248b618dad330441d8c87f4e1890 *man/sim.coaltree.sp.mu.rd
ed65d609fe331a2a23af89b470783c1c *man/sim.dna.Rd
f8008391a96addb5df6f4c63b749272f *man/simSeqfromSp.Rd
cee4f1559c2bf5a769461cfdffdc3eea *man/simnucleotide.Rd
e503da0279ba3655973a5a0ac985d86c *man/site.pattern.Rd
32901f6705aa0789b7d9b3aac1377a8a *man/sortmat.Rd
84103ef62f5d90130492e03e26ef70c4 *man/species.name.Rd
ed80db2a71b547f25824cb531fc96b3b *man/spstructure.Rd
833d0163009fee4957be870349f1942d *man/sptree.Rd
917845e63c6a4da5589dce784dfec2e2 *man/star.sptree.Rd
77993448d78ed61f7c329ec8694ad614 *man/steac.sptree.Rd
bc54348b7a28572194826b91f3c404b7 *man/subtree.Rd
3e9aac3b12018e0e615edf0fd5c65834 *man/subtree.length.Rd
3d6538c45cccb85c626ad54f9222162e *man/swap.nodes.Rd
299b6d6a732cfc33a290bd9b77bc7ce4 *man/treedist.Rd
0d3f9e18c9d7f00d7d58e0f389bef90f *man/tripleProb.Rd
463c23c83c0c9bdbfd9bb991de5efb6b *man/tripleloglike.Rd
820dc977d0f816fd4ff43d7e7f7d8858 *man/triplenumber.Rd
afb61ab7d33a1f09d0347cc079d3f9c0 *man/triplepara.Rd
8fa57ed6e8a39b8a3e839573d1805fc5 *man/unrooted.tree.Rd
3c7665c911d542ea937c4e6861b1a31a *man/unroottree.Rd
a63c7986971ec2bf11a4a41f39428b5d *man/upgma.Rd
dc7580bb26d5a9d3f0eb3f9538d81393 *man/write.dna.rd
e893618ebc6b51c410122d83758dc4ae *man/write.subtree.Rd
b1ed4f9883f99af12de0bd015cb8f34a *man/write.tree.string.Rd
d82b336277f8223a399cd530c9127a18 *src/tripleml.c
