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| laser-package | LASER |
| agamids | Ultrametric Phylogeny of Australian Agamid Lizards |
| bd | Fit Rate-Constant Birth-Death Model to Branching Times |
| birthdeathSim | birthdeathSim |
| calcLHbd | Calculate Likelihood of Branching Times Under Birth-Death Model |
| DDL | Fit Density Dependent Speciation Model to Branching Times |
| DDX | Fit Density Dependent Speciation Model to Branching Times |
| fitBOTHVAR | Fit model with continuous-time varying speciation/extinction rates to phylogeny |
| fitdAICrc | Test for Rate Variation Using delta-AICrc Test Statistic |
| fitdAICrc.batch | Generate Null Distribution of dAICrc |
| fitEXVAR | Fit model with continuous-time varying speciation/extinction rates to phylogeny |
| fitNDR_1rate | Estimate diversification rate from combined taxonomic/phylogenetic data |
| fitNDR_2rate | Fit 2-rate diversification model to combined phylogenetic/taxonomic data |
| fitSPVAR | Fit model with continuous-time varying speciation/extinction rates to phylogeny |
| gamStat | gamStat |
| getBtimes | Get Branching Times From Parenthetic-Format Tree ('Newick') |
| getBtimes.batch | Branching Times for Batch of Phylogenies |
| getTipdata | Add species richness data to tips of phylogenetic tree |
| lambda.crown.ms01 | Estimate speciation rates for crown and stem groups |
| lambda.stem.ci | Estimate speciation rates for crown and stem groups |
| lambda.stem.ml | Estimate speciation rates for crown and stem groups |
| lambda.stem.ms01 | Estimate speciation rates for crown and stem groups |
| laser | LASER |
| mccrTest | Conduct monte carlo constant rates (gamma statistic) test |
| plethodon | plethodon |
| plotLtt | plotLtt |
| plotNodeNumbers.phylo | Plot phylogenetic tree with node numbers |
| plotRate | Plot speciation and extinction rates through time |
| pureBirth | pureBirth |
| rtrees5 | Random Phylogenetic Trees |
| rtrees50 | Random Phylogenetic Trees |
| scaleBranchingtimes | Scale Branching Times |
| skinkdiversity | Species richness for Australian sphenomorphine skink genera |
| skinktree | Phylogenetic tree of Australian sphenomorphine skink genera |
| truncateTree | Truncate a Set of Branching Times |
| warblers | Branching times from phylogeny of North American Dendroica warblers |
| yule-n-rate | yule-n-rate |
| yule2rate | yule-n-rate |
| yule3rate | yule-n-rate |
| yule4rate | yule-n-rate |
| yule5rate | yule-n-rate |
| yuleSim | yuleSim |
| yuleWindow | Fit Yule Model (Pure Birth) to Temporal Window of Branching Times |