Analysis of evolutionary diversification

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Documentation for package ‘geiger’ version 1.3-1

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geiger-package GEIGER
area.between.curves Area between two curves
BDsim Birth-death population simulator
birthdeath.tree Birth-death tree simulator
crown.limits Calculate net diversification rate with confindence limits, and test diversities
crown.p Calculate net diversification rate with confindence limits, and test diversities
deltaTree Tree transformations
disp.calc Disparity-through-time
dtt Disparity-through-time
dtt.full Disparity-through-time
exponentialchangeTree Tree transformations
fitContinuous Model fitting for continuous data
fitDiscrete Model fitting for discrete comparative data
geiger GEIGER
geospiza Data from Darwin's finches
getAncStates Estimate ancestral character states for continuous characters
ic.sigma Estimate Evolutionary VCV Matrix
kappaTree Tree transformations
lambdaTree Tree transformations
linearchangeTree Tree transformations
name.check Compares taxa in data and tree
node.leaves Returns all descendents of a given node in your tree
ouTree Tree transformations
phy.anova Phylogenetic ANOVA and MANOVA
phy.manova Phylogenetic ANOVA and MANOVA
prune.extinct.taxa Prune specified taxa from a phylogenetic tree
prune.random.taxa Prune specified taxa from a phylogenetic tree
rate.estimate Calculate net diversification rate with confindence limits, and test diversities
rc Relative cladogenesis test
rescaleTree Tree transformations
runMedusa MEDUSA: Modeling evolutionary diversification using stepwise AIC
sim.char Simulate character evolution
speciationalTree Tree transformations
stem.limits Calculate net diversification rate with confindence limits, and test diversities
stem.p Calculate net diversification rate with confindence limits, and test diversities
summaryMedusa MEDUSA: Modeling evolutionary diversification using stepwise AIC
tip.disparity Tip disparity calculation
treedata Compares taxa in data and tree
tworateTree Tree transformations