Files in richfitz/diversitree

Comparative 'Phylogenetic' Analyses of Diversification

R/asr-bisse.R R/asr-geosse.R R/asr-mkn.R R/asr-musse.R R/asr-t.R R/asr.R R/check.R R/clade-tree.R R/constrain.R R/continuous.R R/desolve.R R/diversitree-branches.R R/drop.tip.fixed.R R/dtlik.R R/gslode.R R/history.R R/mcmc-hmc.R R/mcmc-norm.R R/mcmc-slice.R R/mcmc.R R/mle-grid.R R/mle-integer.R R/mle-methods.R R/mle-mixed.R R/mle-optimize.R R/mle-subplexR.R R/mle.R R/model-bd-nee.R R/model-bd-ode.R R/model-bd-split.R R/model-bd-t.R R/model-bd.R R/model-bisse-split.R R/model-bisse-t.R R/model-bisse-td.R R/model-bisse-unresolved.R R/model-bisse.R R/model-bisseness-unresolved.R R/model-bisseness.R R/model-bm-contrasts.R R/model-bm-pruning.R R/model-bm-vcv.R R/model-bm.R R/model-classe.R R/model-eb.R R/model-geosse-split.R R/model-geosse-t.R R/model-geosse.R R/model-lambda.R R/model-mkn-meristic.R R/model-mkn-multitrait.R R/model-mkn-ode.R R/model-mkn-pij.R R/model-mkn.R R/model-musse-multitrait.R R/model-musse-split.R R/model-musse-t.R R/model-musse-td.R R/model-musse.R R/model-ou-pruning.R R/model-ou.R R/model-pgls.R R/model-quasse-common.R R/model-quasse-fftC.R R/model-quasse-fftR.R R/model-quasse-mol.R R/model-quasse-split.R R/model-quasse.R R/plot-alt-extra.R R/plot-alt-util.R R/plot-alt.R R/profiles-plot.R R/rescale.R R/sim-character.R R/simulate-bd.R R/simulate-bisse.R R/simulate-bisseness.R R/simulate-classe.R R/simulate-geosse.R R/simulate-musse.R R/simulate-quasse.R R/simulation.R R/split.R R/t.R R/td.R R/time-machine.R R/util-tree.R R/util.R R/zzz.R README.md inst/CONTRIBUTORS.md inst/tests/helper-diversitree.R inst/tests/run-tests.R inst/tests/test-asr-t.R inst/tests/test-asr.R inst/tests/test-bd-split.R inst/tests/test-bd-t.R inst/tests/test-bd.R inst/tests/test-bisse-split.R inst/tests/test-bisse-t.R inst/tests/test-bisse-td.R inst/tests/test-bisse.R inst/tests/test-bisseness.R inst/tests/test-bm.R inst/tests/test-branches.R inst/tests/test-classe.R inst/tests/test-eb.R inst/tests/test-geosse-t.R inst/tests/test-geosse.R inst/tests/test-lambda.R inst/tests/test-mcmc.R inst/tests/test-mkn.R inst/tests/test-mle.R inst/tests/test-musse-multitrait.R inst/tests/test-musse-split.R inst/tests/test-musse-t.R inst/tests/test-musse.R inst/tests/test-ode.R inst/tests/test-ou.R inst/tests/test-pgls.R inst/tests/test-quasse-internal.R inst/tests/test-quasse-split.R inst/tests/test-quasse.R inst/tests/test-rescale.R inst/tests/test-time-machine.R inst/tests/test-unresolved.R inst/tests/test-utils.R man/argnames.Rd man/asr-bisse.Rd man/asr-mkn.Rd man/asr.Rd man/big.brother.Rd man/check.Rd man/combine.Rd man/constants.Rd man/constrain.Rd man/diversitree-deprecated.Rd man/diversitree-package.Rd man/find.mle.Rd man/history.from.sim.Rd man/make.bd.Rd man/make.bd.split.Rd man/make.bd.t.Rd man/make.bisse.Rd man/make.bisse.split.Rd man/make.bisse.td.Rd man/make.bisseness.Rd man/make.bm.Rd man/make.clade.tree.Rd man/make.classe.Rd man/make.geosse.Rd man/make.geosse.split.Rd man/make.geosse.t.Rd man/make.mkn.Rd man/make.musse.Rd man/make.musse.multitrait.Rd man/make.musse.split.Rd man/make.musse.td.Rd man/make.pgls.Rd man/make.prior.Rd man/make.quasse.Rd man/make.quasse.split.Rd man/mcmc.Rd man/plot.history.Rd man/profiles.plot.Rd man/protect.Rd man/quasse-common.Rd man/set.defaults.Rd man/sim.character.Rd man/simulate.Rd man/trait.plot.Rd man/utils.Rd pub/bm/bm-timing-fun.R pub/bm/bm-timing.R pub/simulations/musse-simulations-fun.R pub/simulations/musse-simulations.R run_tests.R www/archive/diversitree-bisse_0.2-1.pdf www/archive/diversitree-bisse_0.3-2.pdf www/archive/diversitree-tutorial-0.5_3.pdf www/examples/ou-nonultrametric/ou-nonultrametric.R www/examples/uneven/uneven.R www/examples/unreplicated/unreplicated.R www/logo/logo-on-black.R www/logo/logo.R