API for hmorlon/PANDA
Phylogenetic ANalyses of DiversificAtion

Global functions
Anolis.data Man page
BGB.examples Man page
BICompare Man page Source code
Balaenopteridae Man page
CLIMtransform Source code
Calomys Man page
Cetacea Man page
CreateBioGeoB_Object_subclade Source code
CreateClassObject Man page Source code
CreateGeoObject Man page Source code
CreateGeoObject_BioGeoBEARS Man page Source code
CreateGeobyClassObject Man page Source code
InfTemp Man page
Integrate Source code
Inverse_FB Source code
Inverse_FB2 Source code
JSDtree Man page Source code
JSDtree_cluster Man page Source code
Lambert2Newick Source code
LikelihoodSGDFromLambert Source code
PhenotypicACDC-class Man page
PhenotypicADiag-class Man page
PhenotypicBM-class Man page
PhenotypicDD-class Man page
PhenotypicGMM-class Man page
PhenotypicModel-class Man page
PhenotypicOU-class Man page
PhenotypicPM-class Man page
Phi Source code
Phocoenidae Man page
Phyllostomidae Man page
Phyllostomidae_genera Man page
Phylo2Lambert Source code
Psi Source code
RPANDA Man page
RPANDA-package Man page
Simulate_SGD_Phylogeny Source code
VCV.rescale Source code
VCV.rescale.DDexp_geog Source code
VCV.rescale.DDlin_geog Source code
VCV.rescale.geog Source code
[,PhenotypicModel,ANY,ANY,ANY-method Man page
[<-,PhenotypicModel,ANY,ANY,ANY-method Man page
birthdeath.tree.timevar_simp Source code
createModel Man page Source code
createModelCoevolution Man page Source code
createModel_DDexp Source code
createModel_DDexp_geo Source code
createModel_DDlin Source code
createModel_DDlin_geo Source code
createModel_MC Source code
createModel_MC_geo Source code
dens Source code
derivative_edge Source code
derivative_leaf Source code
endOfPeriods Source code Source code Source code Source code Source code Source code Source code
endOfPeriodsGMM Source code
event_txt_into_events_row Source code
events_txt_into_events_table Source code
events_txt_list_into_events_table Source code
fitTipData Man page
fitTipData,PhenotypicModel-method Man page
fitTipData-methods Man page
fit_bd Man page Source code
fit_coal_cst Man page Source code
fit_coal_var Man page Source code
fit_env Man page Source code
fit_sgd Man page Source code
fit_t_comp Man page Source code
fit_t_comp_subgroup Man page Source code
fit_t_env Man page Source code
g Source code
getDataLikelihood Man page
getDataLikelihood,PhenotypicModel-method Man page
getDataLikelihood-methods Man page
getLivingLineages Source code Source code Source code Source code Source code Source code Source code
getMatrixCoalescenceJ Source code Source code Source code Source code
getStartingTimes Source code Source code Source code
getTipDistribution Man page
getTipDistribution,PhenotypicACDC-method Man page
getTipDistribution,PhenotypicADiag-method Man page
getTipDistribution,PhenotypicBM-method Man page
getTipDistribution,PhenotypicDD-method Man page
getTipDistribution,PhenotypicGMM-method Man page
getTipDistribution,PhenotypicModel-method Man page
getTipDistribution,PhenotypicOU-method Man page
getTipDistribution,PhenotypicPM-method Man page
getTipDistribution-methods Man page
integr Source code
isATip Source code Source code Source code Source code Source code Source code Source code
likelihood_bd Man page Source code
likelihood_coal_cst Man page Source code
likelihood_coal_cst_mod Source code
likelihood_coal_exp_mod Source code
likelihood_coal_var Man page Source code
likelihood_sgd Man page Source code
likelihood_subgroup_model Man page Source code
likelihood_t_DD Man page Source code
likelihood_t_DD_geog Man page Source code
likelihood_t_MC Man page Source code
likelihood_t_MC_geog Man page Source code
likelihood_t_env Man page Source code
lines.fit_t.env Man page Source code
m Source code
modelSelection Man page
modelSelection,PhenotypicModel-method Man page
modelSelection-methods Man page
periodizeOneTree Source code Source code Source code Source code
periodizeOneTree_geo Source code Source code Source code
plot.fit_t.env Man page Source code
plot_BICompare Man page Source code
plot_dtt Man page Source code
plot_fit_bd Man page Source code
plot_fit_env Man page Source code
plot_spectR Man page Source code
print,PhenotypicModel-method Man page
print.fit.bd Source code
print.fit.env Source code
print.fit_t.env Source code
resortGeoObject Source code
revised_spectR Source code
rho_0to1 Source code
rho_0tofixe Source code
rho_1mute0 Source code
rho_1to1 Source code
show,PhenotypicModel-method Man page
sim.convergence.geo Man page Source code
sim.divergence.geo Man page Source code
sim_env_bd Man page Source code
sim_sgd Man page Source code
sim_t_comp Man page Source code
sim_t_env Man page Source code
simulateTipData Man page
simulateTipData,PhenotypicModel-method Man page
simulateTipData-methods Man page
spectR Man page
stratified_BGB_to_tables Source code
trimSimmap Source code
updateBranchingMatrixSigma Source code
vcv.rescale.DDexp Source code
vcv.rescale.DDlin Source code
hmorlon/PANDA documentation built on Dec. 11, 2017, 5:43 a.m.