679dad253f27a7daeb8cf68af5751d7c *DESCRIPTION
1f1a6145cffb325ebc25212fc98dda08 *NAMESPACE
4c737ec8d56118e1b7fdfcf81cea1658 *NEWS
fc2dc67cd12f0fa2152d2b0a4e78a445 *R/checkdata.R
786825abfb139c44d4ef6d271fac4d2b *R/class-multiphylo4.R
c0e2782404632e4e3420ac9520a7eb67 *R/class-oldclasses.R
5931ddafddee3efdbc12486b93d404b1 *R/class-phylo4.R
457fdeb133aafb1814a5f283c548d0d8 *R/class-phylo4d.R
fa1073bc2c21e96ba5adfd8f38e5a58e *R/class-phylomats.R
15ba2aceffea7dee2cedf18aec932b01 *R/formatData.R
d41d8cd98f00b204e9800998ecf8427e *R/methods-multiphylo4.R
9f2a0e17e44c9fa3c614c5802cc39668 *R/methods-oldclasses.R
37a0d2d1d6a8feb7c42ede61c5fd51f9 *R/methods-phylo4.R
6abf75e284e5f3d98a62a300cf6f86e7 *R/methods-phylo4d.R
c1d35c0429edaa72d985736124245db9 *R/pdata.R
a5ed29295d08b71d41c3f7b4004f469f *R/phylo4.R
81038dfbe732ec6615e9b4a8757cb5c7 *R/phylobase.options.R
919178c29c6f2774e7aef61ce8ec32c1 *R/prune.R
0b69a76acfd500036d044ac3cde33c63 *R/readNCL.R
b0072934737aa148e08d56d2a62416b6 *R/setAs-Methods.R
d52de19b321917cedf2f0f4d85b3b849 *R/subset.R
957d6bb59eea50e691c3411bd7c8a455 *R/tbind.R
c90e9f67f63d59e619c98fec508e2c9c *R/treePlot.R
3867680e0d0bb9df5be64341da4d184c *R/treestruc.R
ee77b5b71e21e180506f75448d522a39 *R/treewalk.R
985334ad123c94c5da976827785c7cc6 *R/zzz.R
ff30585b1cc83536fb4e522c883d3712 *TODO
c31da14d64f9037d8cf1783fa6627be5 *cleanup
33420830f1d98bf8c2deac5a4797955f *data/geospiza.rda
196befa90407bac18a06dad7e00a028e *data/geospiza_raw.rda
c96b8393e74836b5edecfa0ea100121a *inst/doc/developer.Rnw
89467ac82eee5b79f7828df62b069d08 *inst/doc/developer.pdf
0beab0eea1bd99ef8c932c7fc4b25f1e *inst/doc/phylobase.Rnw
ff7cbf73cae31f1950dbd820c63977cf *inst/doc/phylobase.pdf
1fff9fa62be103e818e88abf156ffacb *inst/nexusfiles/ExContData.Rdata
c05860e96ba5feab12b1269f43a43f1b *inst/nexusfiles/MultiLineTrees.nex
fb2ae9b4cc08ab2d0959508a55c83633 *inst/nexusfiles/badnex.nex
f8225a526530eabfaa8ea117e2a82aae *inst/nexusfiles/co1.nex
6a3ac94f10b8ce03cab3410b7778034b *inst/nexusfiles/multiLines.Rdata
4d5d4d71cf83b54eed9811470482e8d2 *inst/nexusfiles/newick.tre
51849f725c9b6097be5f2b6453c33844 *inst/nexusfiles/noStateLabels.nex
8c16a312ee724e2a94aecd5b2c6df0ee *inst/nexusfiles/treeRoundingError.nex
99b2fe340a17a7e8cac9cfb9bdbafe70 *inst/nexusfiles/treeWithContinuousData.nex
9d27abaf6517ea4ca9881bd9f8c0032a *inst/nexusfiles/treeWithDiscAndContData.nex
963e6a5568b7fae9291232b8abfd496c *inst/nexusfiles/treeWithDiscreteData.nex
6deabaca8bbfe8c34e60d06349f31398 *inst/nexusfiles/treeWithPolyExcludedData.nex
4961bb5af89e1cfd63944af5d8ee8408 *inst/nexusfiles/treeWithUnderscoreLabels.nex
334f0de6ed55dc79f59addf091097353 *inst/unitTests/Makefile
6ca70fff5010a0016466c43ce66b9052 *inst/unitTests/runit.badnex.R
8d540f61a98ccef2af93f8920618475c *inst/unitTests/runit.checkdata.R
a6fc45ff0144e1df01c424839b0b0707 *inst/unitTests/runit.class-phylo4.R
22093c976c27f764cb70116947745263 *inst/unitTests/runit.class-phylo4d.R
d4c972ca41c3416771b20998db334447 *inst/unitTests/runit.formatData.R
ab309c76ce5bf8e8936d83cfc9101af3 *inst/unitTests/runit.methods-oldclasses.R
e74972608b81188995e03adc55c7e79b *inst/unitTests/runit.methods-phylo4.R
117ef7719d77914174e325d629072396 *inst/unitTests/runit.methods-phylo4d.R
5dfa8f8bb82a07fd2314f53920d87e02 *inst/unitTests/runit.pdata.R
570184710ed31cb9aa49316d9f2046dd *inst/unitTests/runit.phylo4.R
16a2490f1c8321a19d01103061306f28 *inst/unitTests/runit.phylobase.options.R
eeb3d78b5a6839a0a374a98668c70075 *inst/unitTests/runit.prune.R
0579e8e72fe70339718b89c8c23654a1 *inst/unitTests/runit.readNCL.R
87d7dd9f963ef2b4f1fc9810af0ec6ba *inst/unitTests/runit.readNexus.R
8e17fc62823dfc3b3567616f434e2430 *inst/unitTests/runit.setAs-Methods.R
db1cef590d782484f6ab2074e346835f *inst/unitTests/runit.subset.R
9605f01bf3120a6f159115c891cc0f89 *inst/unitTests/runit.tbind.R
f7f95bc1c3d4da9d00ee212c2622249a *inst/unitTests/runit.treePlot.R
b982b13abbaff1e9d4ff68145617e633 *inst/unitTests/runit.treestruc.R
71f8014630b7372e20c51265dfc26f7c *inst/unitTests/runit.treewalk.R
faa80b9dc2cd31b6cd9911d5f17beb72 *man/addData.Rd
f8caba4aff1532cfce8374c99043f818 *man/as-methods.Rd
f33ed6665274ff4042e9dd0222bf7f74 *man/check.phylo4.Rd
c1cce61271aaa3e84a82969261d985b5 *man/extract.tree.Rd
1626ef49f44fa5791f032b8a09600369 *man/formatData.Rd
71ce2857783000dddf6e662933c551d3 *man/geospiza.Rd
0694a0646f61b53273905c4875f823ba *man/getNode.Rd
768a7b46d2a8715d159c319a0e096162 *man/hasSingles.Rd
6b40ef902ecb74e00e4b626129ab5c1d *man/multiPhylo-class.Rd
8659f8d736a2bf014af396a5f9e7369e *man/pdata-class.Rd
56c97c6ab485240aa14f9168642ea50b *man/pdata.Rd
a66ef10cfdc21550d3279ea0f8f50dd8 *man/phylo4-accessors.Rd
5aa7238aae5b6142fdb354dd5b34f4e8 *man/phylo4-class.Rd
82b75ca235c7d4d594b6042fa3e233d5 *man/phylo4-display.Rd
cf97edf32e508dfed8026e0cee73c65c *man/phylo4-labels.Rd
b3d7e628fd0c6cec79ec7b973d0a95d9 *man/phylo4.Rd
0456b879013a2194958024ae7701e4fd *man/phylo4d-class.Rd
669f117f49e9f1293e36b77f96c5ee80 *man/phylo4d-display.Rd
b1f47cc0b622c67ad9b9737bef05d77d *man/phylo4d-hasData.Rd
d18466dda5b57b36f32ee20445dfda2e *man/phylo4d-nData.Rd
10b5c050557c6b76d53e8f6443a5015b *man/phylo4d.Rd
bf16fccf990ca8e224572ec3ca8294e1 *man/phyloXXYY.Rd
489ebf1a48bba1d1c22d9d262e1a54af *man/phylobase-package.Rd
2e1bd340689db7f7dcf6dc6be718db20 *man/phylobase.options.Rd
2666328cfe0b294449d2122d1b140cb0 *man/phylobubbles.Rd
bc6e7107f8d22ec0048e8ba5688eea0d *man/phylog.Rd
79d9259f155627ce71fd182ae9c29af2 *man/phylomat-class.Rd
a33cc1cd71c632a8e58dde605295a21d *man/plotOneTree.Rd
084789c4619729f5b14cbc07a34ce266 *man/printphylo4.Rd
1878d80a08c81a262f4fcdd181a4e29d *man/readNCL.Rd
b46cf2b9d5cc37535046749b21a376ae *man/reorder-methods.Rd
5bf381b816b0ce55c6f5667ac53ca2ce *man/subset-methods.Rd
93378148a2f806b5417ae8848d271e35 *man/tdata.Rd
b7d0031ee5f5a34fd35a622ec6f39267 *man/tip.data.plot.Rd
71fb81b5ddb35c21359090fed128f6ee *man/treePlot-methods.Rd
9d1acb2c1ac5cce8141f73a47428e27e *man/treewalk.Rd
0dcecd2d264805b46624006035ac64cb *misc/pdata.R
1827df3049ad2d63e2732a21d17de704 *src/GetNCL.cpp
29e91f7759e100b4f9d902c00a9d8a04 *src/Makevars
4e6f6cde5072f3bdfff9bf1664077424 *src/Makevars.win
15cbb15a89b490dedacabf4c4d3f29c9 *src/ancestors.c
b06c8e98609078f1734f5c5b0614ca43 *src/descendants.c
87210b76102c11d0a2890f10494bf75c *src/ncl/ncl.h
693c38f98d7c4292b1c02b5903e67ea6 *src/ncl/nxsallocatematrix.h
0c8cff37efbe6dc4eae09c799b340af2 *src/ncl/nxsassumptionsblock.h
44f64b8ad1dae0551e55f5dd52842bbf *src/ncl/nxsblock.h
994ff5c8246edc19238b40a1cf699098 *src/ncl/nxscdiscretematrix.h
f60aba75068b42972f5caf91e7f8f777 *src/ncl/nxscharactersblock.h
02cbf0a74d2b48ae5dbf54dec8ee49f0 *src/ncl/nxscxxdiscretematrix.h
c4940f98805f48981da09e891b3fc494 *src/ncl/nxsdatablock.h
f333eb2f64101a647d9e5e2d2e0794ce *src/ncl/nxsdefs.h
c9e55d1032b96ed8560abd86ed428c35 *src/ncl/nxsdiscretedatum.h
26e3921bf4a40066b12aa108d68a9e58 *src/ncl/nxsdistancedatum.h
52c9a053a25da412005439664e0597b1 *src/ncl/nxsdistancesblock.h
b4ca8c10be2bc63c9e541ba12fc4f1f1 *src/ncl/nxsemptyblock.h
e402d049dc9cccfb6f84c17b01b94e60 *src/ncl/nxsexception.h
eb76426dff57be41085931b98b59481b *src/ncl/nxsmultiformat.h
8439eb689d030847fdbb2d744cd1d5db *src/ncl/nxspublicblocks.h
5e9599513e347ae6908d4f452d4c1ef4 *src/ncl/nxsreader.h
97525aa3a9a6e3e1b1fcd85b9b8a0e9a *src/ncl/nxssetreader.h
ce696762c11d07791c9748e5e2a69ab8 *src/ncl/nxsstring.h
0d6a9a1e6e058ae4c64f36b329c13d74 *src/ncl/nxstaxablock.h
f256fe59daaf850dff6c51c2ed0a6cbf *src/ncl/nxstoken.h
abef2132281e8212850f079d3c9d8079 *src/ncl/nxstreesblock.h
1d9648bfe5d30828ca3a3ded00158d90 *src/ncl/nxsunalignedblock.h
4ddc662cda9776eedd67c97264d6cc79 *src/ncl/nxsutilcopy.h
4391c5eae372a17c7eab53f1610475b8 *src/nxsassumptionsblock.cpp
56b295c46629abb36af0b0ac24fe9ccb *src/nxsblock.cpp
bd6ab2c67c8692e0dee4af199412ad14 *src/nxscharactersblock.cpp
d16d656c5a7fd1e12c12fed72374b79f *src/nxscxxdiscretematrix.cpp
1e20aef0b59ff74cfc00a03f8650b9dc *src/nxsdatablock.cpp
68b329da9893e34099c7d8ad5cb9c940 *src/nxsdistancedatum.cpp
2b1df4db22e0d62341263f822ee84fb8 *src/nxsdistancesblock.cpp
1f4b8c9631e4e0f83c005a0d09225b5d *src/nxsemptyblock.cpp
e69a785d993df590f3d24d0ac3a4e4ac *src/nxsexception.cpp
6b3c7899ed08926301d2bdca4d659d24 *src/nxsmultiformat.cpp
c0fe29306314d1ba8e0c7616bd634e81 *src/nxspublicblocks.cpp
3a85d2f75867b359616437467f5a7b3e *src/nxsreader.cpp
39e0dadc5306b7ab5179c3dfa5e81e81 *src/nxssetreader.cpp
d3871272649e017d802c7510a8947a34 *src/nxsstring.cpp
5df0148d630a99a2e163951716cc9a27 *src/nxstaxablock.cpp
fbb0df56accf5956d8e4124010f48173 *src/nxstoken.cpp
9ac80a1977e21be22cf371ffb76e6508 *src/nxstreesblock.cpp
862f00eedbcd3d97d1b4a420c246c736 *src/nxsunalignedblock.cpp
1b1d0ecd28d6eb26a29fc576091cc5c3 *src/phyloXX.c
dc5efccf4d370c4c7b0801bcbfd74a9b *src/reorderBinary.c
1944dc3ac77930043bb7ccb02f3718cd *src/reorderRobust.c
28f06504613e7585f2a63ccb43db0bf0 *tests/doRUnit.R
487cb7f326b048f27e304991bce788da *tests/doRUnit.Rout.save
b56d3221733cad8532959be3ad53ecad *tests/misctests.R
3a1590b7621d14aa59a7259ce0e0b867 *tests/misctests.Rout.save
3056848b8c4b2639248933634e7ab49b *tests/nexusdata.R
583f7deabfff681f5852d3b0100ffc33 *tests/nexusdata.Rout.save
f8c9e1533736d8d4c2222be81d07efb9 *tests/phylo4dtests.R
3b3b6bde90afcac1344ac3358be9d366 *tests/phylo4dtests.Rout.save
b5ca56b2fb65267bf3d03dd42c3fd06d *tests/phylosubtest.R
e57035bb4a87ca14dacc5958b78161f1 *tests/phylosubtest.Rout.save
d1a277d8fe278cc1782b72838be6f8eb *tests/phylotorture.R
5bb84c74dab89a4e6b26d64399bf42da *tests/phylotorture.Rout.save
c0d34859a3f1c85519d3aec0fa07be1e *tests/plottest.R
e226aa2d0329307f4760cc7fc749df2c *tests/plottest.Rout.save
39c9069ce81688327a003ac73302c1fc *tests/roundtrip.R
cafe827b6bef41d6a2c36077dfcbd4c7 *tests/roundtrip.Rout.save
38c287fa7b4426eab00c31412ff770be *tests/testprune.R
fb40d470bba3bb56333d115b81adddc5 *tests/testprune.Rout.save
