Likelihood Analysis of Speciation/Extinction Rates from Phylogenies


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Documentation for package `laser' version 1.0

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laser-package Likelihood Analysis of Speciation/Extinction Rates from Phylogenies
agamids Ultrametric Phylogeny of Australian Agamid Lizards
batchgam Compute Gamma Statistic For Batch of Branching Times
bd Fit Rate-Constant Birth-Death Model to Branching Times
calcLHbd Calculate Likelihood of Branching Times Under Birth-Death Model
dAICrc.batch Generate Null Distribution of dAICrc
DDL Fit Density Dependent Speciation Model to Branching Times
DDX Fit Density Dependent Speciation Model to Branching Times
fitdAICrc Test for Rate Variation Using delta-AICrc Test Statistic
fitdAICrc.batch Generate Null Distribution of dAICrc
gamStat gamStat
gamStat.batch Compute Gamma Statistic For Batch of Branching Times
getBtimes Get Branching Times From Parenthetic-Format Tree ('Newick')
getBtimes.batch Branching Times for Batch of Phylogenies
plethodon plethodon
plotLtt plotLtt
pureBirth pureBirth
rtrees5 Random Phylogenetic Trees
rtrees50 Random Phylogenetic Trees
rvbd Fit Rate-Variable Diversification Model With Extinction to Branching Times
scaleBranchingtimes Scale Branching Times
summarydAICrc Generate Null Distribution of dAICrc
truncateTree Truncate a Set of Branching Times
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