20dae041b79d3e67e8738fc224489f9d *DESCRIPTION
91bef6e77e090972f03b25f6542352a6 *NAMESPACE
68d45b8dbbbb18d8ae6ec46d32d6807d *R/FindGenerations.R
a27a1c8cb115d183e191c3e095f8d50f *R/GenerateValues.R
073b811f420d6022084ae6d3a75508bf *R/GetModelWeight.R
e6bdc441446400a94e622d4004d507da *R/PruneRedundantModels.R
878f03f7f6c60db80ad5dcb0f2052a6c *R/fossilUtilities.R
d185117e94c40f53752466821040f5d2 *R/geohisse.R
c2d66397fa77d87570d0927675a37571 *R/geohisse.old.R
fccfa32ffdebb7018a62b5459bb01963 *R/geohisseLikelihood.R
27f195a535063a61270ad02f82cdc9da *R/getModelAveTipRates.R
75b3418d43c0df7fe31b81df8f00239e *R/hisse.R
56f79fea463e789a0353b2c0c8827427 *R/hisse.old.R
6551c7617deaf3b7145e28d75beee54c *R/hisseLikelihood.R
3f944b9d2f3e434008078b380e4259cf *R/hisseNull4.old.R
4d560b2d5e7815780a8dc28b73263595 *R/marginRecon.R
d10f98303b86433ad8a6f3613c004942 *R/misse.R
69aa24da1fccc433cf0a5e4e05e64c64 *R/misseNet.R
52b8d5c32a8be4c3a9e9350541bf606b *R/muhisse.R
9d0ade06d212784f28967b221130f42d *R/plotContMapHiSSE.R
41144b4b3b9f790483df1eacfbb20741 *R/plotHisse.R
d663ced2308b348923d15a77492f22a0 *R/simulateGeoHiSSE.R
15a0e6ba6382f10d2efb115b0472d7c4 *R/simulateHisse.R
bb937b5fbb324bef131477676cce3689 *R/singleModels.R
d671804cf683fa9090bdf164165701d3 *R/startingPointGenerators.R
8d4e71a135fc9c433c961ac7d6ed6645 *R/summarizeHisse.R
3afe3222dfdf80b6db2be270e08b2b58 *R/supportRegion.old.R
cf1be4a0eb8539ce5204de91a2831a73 *R/supportRegionGeoSSE.R
cf543310c589150d268c42ba51fa99b5 *R/supportRegionGeoSSE.old.R
c89f2ac6403a463197ad232d80694a23 *R/supportRegionHiSSE.R
894fb8b46282174654205d2ee48a83b5 *R/supportRegionMiSSE.R
44d3db7cedec83ebc9024f5bceb1f599 *R/supportRegionMuHiSSE.R
ca7ec25453f791396b0953692608d646 *R/tipCorrelation.R
ed7e214e7663b33be43dd0d514ee0b10 *R/transMat.old.R
1e01dcc7c8f8a4637bb79d2194d425e4 *R/transMatGeoHiSSE.R
35e0448999b9a4a1f7ffca44b687ca61 *R/transMatGeoHiSSE.old.R
23ad853769ce26f1f6fa96414229a94d *R/transMatHiSSE.R
c58aeb582b9f64af80d2b107e80ebdfc *R/transMatMuHiSSE.R
9ba65c31f37bcb521a2fec781440e9c9 *build/vignette.rds
52ec439138e7f511821bcdc563ff3425 *inst/CITATION
a25c426632931180f9c7dec0ee31f248 *inst/doc/Clade-specific-sampling.R
133310c3032e72e482b6516ed2107df3 *inst/doc/Clade-specific-sampling.Rmd
32eab0d5da6850b75c232506612a02a8 *inst/doc/Clade-specific-sampling.pdf
6d8d1080763c28888d8c27451f90cc2f *inst/doc/GeoHiSSE-vignette.R
83df36f5fd6f69f7ad26f148f8a00959 *inst/doc/GeoHiSSE-vignette.Rmd
fc985d1a3ffac4ef6ba1dc1c8144591f *inst/doc/GeoHiSSE-vignette.pdf
382ed01524f378c7744757e4216a0921 *inst/doc/MiSSE-vignette.R
cbd5757dfe410257a728d6373a0aa6ed *inst/doc/MiSSE-vignette.Rmd
80e9af8ce1526fe80f7a761f9ad783d0 *inst/doc/MiSSE-vignette.pdf
4d1970ce5ee0e5f6e0dec785164d84a7 *inst/doc/MuHiSSE-vignette.R
f8e6a384b36e0f03f462cb6cad18408d *inst/doc/MuHiSSE-vignette.Rmd
c773c61ccc5c08df7127a1c469cdbec8 *inst/doc/MuHiSSE-vignette.pdf
049b52bab5357f3ecae9ce740d9cb95d *inst/doc/adding_fossils.R
b26b4370e7976f7dadbee706895ff5b0 *inst/doc/adding_fossils.Rmd
b4fe3425a65647e6b390951378215052 *inst/doc/adding_fossils.pdf
3809b8c0de03973c5aea51cd27e9e7db *inst/doc/hisse-fisse-type1-vignette.R
9631e8d61de42196cb7c4a17bb49b9ca *inst/doc/hisse-fisse-type1-vignette.Rmd
233e34eb7106d65c7b6ac00d955e587a *inst/doc/hisse-fisse-type1-vignette.pdf
bad47e7e9bf661a565c65e5569e78e8f *inst/doc/hisse-new-vignette.R
f8fdaf2052b2031c5fb0a1f9f090c5fd *inst/doc/hisse-new-vignette.Rmd
e57a3dca20a85f9777cef8c71f1a8c5d *inst/doc/hisse-new-vignette.pdf
bbff8790c9f0445ba7b9fff638e87dd4 *inst/doc/hisse-vignette.R
00a3627252ce9ff18465cf9d4e3754d8 *inst/doc/hisse-vignette.Rmd
dcb7b9a0d275b67c88d246428c00bd4b *inst/doc/hisse-vignette.pdf
6f07a5aba42e116b59b00927544128c9 *man/AddFossilPoints.Rd
c145c054500c4b8a63d471daa7fb6e47 *man/AddStratIntervals.Rd
58ee8ff9ad7837311f70282e020dcec8 *man/GeoHiSSE.Rd
16a71506708bdd2cbdcfd92cf729c79f *man/GeoHiSSE.old.Rd
9a12a0714567772a0d77f3c4b0e0ba1a *man/GetAICWeights.Rd
82870df6e72b334d5e820bb752bc7e06 *man/GetFossils.Rd
fbbf1847f9dd75cb38c9b75d8e27c0a4 *man/MiSSE.Rd
dd58708f5a86412a76759702673cd1a2 *man/MiSSEGreedy.Rd
355c2fe9b25fe41ac850fba346e27160 *man/MiSSENet.Rd
37ad1bf25e801917e440bd34a48f3bcb *man/MuHiSSE.Rd
580e361a16afb316fe71db8d178df4b2 *man/PlotMisseSpace.Rd
0a64320ab80569003647e74cf49bdc15 *man/ProcessSimSample.Rd
2b9af40e8780908c4127e0c26afddc71 *man/ProcessSimStrat.Rd
72599c48a0d4ec6bf655be95d8f2ba8d *man/PruneRedundantModels.Rd
015ddbb3134c3ac74aa1233aa5f22994 *man/SimulateGeoHiSSE.Rd
d95cbe5e5da2a77178a2655d84e8c06f *man/TipCorrelation.Rd
6d227fbb20ed60b04c9fc3f83466961d *man/TranslateParsMakerGeoHiSSE.Rd
c5bed28e5f481974089c58cfbbbd0baf *man/generateMiSSEGreedyCombinations.Rd
48cd4d82eca5c60daa34850260837f74 *man/hisse.Rd
597b0669b8f960c09321f93b258746bc *man/hisse.old.Rd
aad6894c3e44c0545c86cccee25201dc *man/hisseNull4.old.Rd
ab88effb7dda91d38b9a37308de29b60 *man/makeGeoHiSSELikelihood.Rd
356d300a4d7f6b3eb721c0823393a017 *man/makeHiSSELikelihood.Rd
f6d06046b61a9a36912895073e747e94 *man/marginRecon.old.Rd
2d3658f81e6a61ec7d1b962486e60338 *man/marginReconGeoSSE.Rd
0425adf0f228f47e2377a4e2f50f72a8 *man/marginReconGeoSSE.old.Rd
acf4628bb465ad8409dac7541579e7ce *man/marginReconHiSSE.Rd
2d53fa33ff2c10e1f218b811b9c3bde3 *man/marginReconMiSSE.Rd
653f668c9264cd144dcae63997ff2174 *man/marginReconMuHiSSE.Rd
d321a8925cfe281918a49ada102754f8 *man/modelAveRates.Rd
7c52a4a5eb1f065fd1f1a920c0cbd13b *man/plotGeoHiSSE.Rd
27f86143e7ea1b814177986f1cbd4db3 *man/plotHisse.Rd
8a3a22020ab627f36e8ffb187793bfee *man/plotMiSSE.Rd
3ec31a53aa31b85c294de4d60354cadb *man/plotMuHiSSE.Rd
5cf4176b447ccf23db9e00df63aacf7a *man/simToPhylo.Rd
769f905976546a06887a40af45ad7de3 *man/simulateHisse.Rd
4aecacd3ed8e24f467be0900742fd6b9 *man/supportRegion.old.Rd
2e6e20f9a370bfa8b14c13f3c5d1b855 *man/supportRegionGeoSSE.Rd
165c588b83f734acc5fd1396e74494fe *man/supportRegionGeoSSE.old.Rd
2680090d450726be166edf6fd8ab1aa5 *man/supportRegionHiSSE.Rd
b9ee14e18c928aa4af927bb466afd38f *man/supportRegionMiSSE.Rd
00f1be87863cf6983c5abd615145d4ca *man/supportRegionMuHiSSE.Rd
0d4aa6455916e3065413adf1de549b1b *man/transMat.Rd
1e0e049243b11cedce17ef3fc0c36f1e *man/transMatMakerGeoHiSSE.Rd
f787e966c3762057a7d685eca674e202 *man/transMatMakerHiSSE.Rd
60be66579556090a61d517327daadfd8 *man/transMatMakerMuHiSSE.Rd
a10296016f2685db54fb28ced404a642 *src/Makevars
ad5bb70b04de9bc6b1839a57968e9771 *src/bisse-ext-derivs.c
c1580959c8672ec23d9de974342e7289 *src/canonical-musse-ext-derivs.c
9363e041611f14dd534369d377a41d59 *src/canonical_geosse-ext-derivs.c
ec0a4d6cafb8fd0c3a27329b6351c240 *src/fbisse-ext-derivs.c
9952215020784b392f5035c3602bf86d *src/fcanonical_geosse-ext-derivs.c
911dcda1f2765b536dd5d662129e6fa9 *src/fgeohisse-ext-derivs.c
5a5615381cb35d99f63e8fbacc1f0973 *src/fhisse-ext-derivs.c
1c26b4d39466d84eec3d47c6987e9281 *src/fnotclasse-ext-derivs.c
199dc70a894b7dc0244da12b637cb994 *src/fnotclasse-more-ext-derivs.c
9cddd52690a27a5fc28a3f413abec7bb *src/geohisse-ext-derivs.c
67ca36f548bd236265dcf4a7fd2db323 *src/hisse-ext-derivs.c
504e6bc1337de6f84cb58d6f8a569100 *src/hissenull-ext-derivs.c
1cf31ecc36de203c9ff194f69cc92f0a *src/misse-ext-derivs.c
edb1dde7aebf5b71425a0a7e65e40c86 *src/muhisse-ext-derivs.c
a4e47232a92c6533072e74d695698709 *src/notclasse-ext-derivs.c
d0a6a58cd725d3e7d266cce9e903da6a *src/notclasse-more-ext-derivs.c
69c49027de405c7dba1be693c8c011f1 *src/registerDynamicSymbol.c
c63bfdef238700166a40686e07021eeb *tests/testthat.R
e546595a70435694cb290422bbac2390 *tests/testthat/CID2_MiSSE_check.Rsave
87c5cb60778bdb8e940c9f8053fbceab *tests/testthat/test_likelihood.R
ac159f319fff7b36a73bca142b00174c *tests/testthat/test_simulator.R
d0e26c588cc3367cb83bc1662408ddd9 *tests/testthat/whales_Steemanetal2009.tre
133310c3032e72e482b6516ed2107df3 *vignettes/Clade-specific-sampling.Rmd
83df36f5fd6f69f7ad26f148f8a00959 *vignettes/GeoHiSSE-vignette.Rmd
c1a57e15934ed303719c017617d53d81 *vignettes/May2017_CID4_added_setsummaries.csv
cbd5757dfe410257a728d6373a0aa6ed *vignettes/MiSSE-vignette.Rmd
f8e6a384b36e0f03f462cb6cad18408d *vignettes/MuHiSSE-vignette.Rmd
b26b4370e7976f7dadbee706895ff5b0 *vignettes/adding_fossils.Rmd
36e575b7a4e90d65dc8c66918610adf4 *vignettes/cladeSamplingVariables.Rsave
ac9f4b305af8a131663e8f19450d9140 *vignettes/geohisse_new_vignette.Rsave
7b9e9bcade2dda4463f9dfd1986ccd1c *vignettes/geohisse_recons_new_vignette.Rsave
c8cb037d045dc9a65e200cc0e8f61981 *vignettes/geohisse_recons_vignette.Rsave
59790e43e3d5e122ea37793de31ac324 *vignettes/geohisse_vignette.Rsave
9631e8d61de42196cb7c4a17bb49b9ca *vignettes/hisse-fisse-type1-vignette.Rmd
f8fdaf2052b2031c5fb0a1f9f090c5fd *vignettes/hisse-new-vignette.Rmd
00a3627252ce9ff18465cf9d4e3754d8 *vignettes/hisse-vignette.Rmd
ec80340c600d1b4566615e432e23edd9 *vignettes/misse.support.Rsave
35e9606edd48e71fd3705773ba68cbac *vignettes/misse.vignette.Rsave
3c410bfae8bcdb399d7d620b900f04ef *vignettes/setCAQTipRatios.Rsave
fa6125b3b2aacc4a3fb817ad1dc11851 *vignettes/setKXHTipRatios.Rsave
88e8c85e9e7fd3a2e8354f900f527532 *vignettes/setMEVTipRatios.Rsave
894e973d4db455e71f626dc741106131 *vignettes/testrecon1.Rsave
67c4fc15a9b4abcf591dfd460adf7774 *vignettes/testrecon2.Rsave
b8a9ee476722fab5fc386775483c4b7b *vignettes/testrecon3.Rsave
d0e26c588cc3367cb83bc1662408ddd9 *vignettes/whales_Steemanetal2009.tre
