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paleotree (version 1.3)

Paleontological and Phylogenetic Analyses of Evolution

Description

Analyzes, time-scales and simulates phylogenies of extinct/fossil lineages. Also calculates diversity curves for stratigraphic range data and phylogenies.

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Version

Install

install.packages('paleotree')

Monthly Downloads

841

Version

1.3

License

GPL (>= 2)

Maintainer

David Bapst

Last Published

April 19th, 2012

Functions in paleotree (1.3)

DiversityCurves

Diversity Curves

degradeTree

Randomly collapse nodes on a phylogeny

expandTaxonTree

Extrapolating Lower-Level Taxon Phylogenies from Higher-Level Taxon Trees

multiDiv

Calculating Diversity Curves Across Multiple Datasets

timeSliceTree

Time-Slicing a Phylogeny

simPaleoTrees

Simulating Un-Conditioned Trees of Fossil Taxa

taxa2phylo

Convert Simulated Taxon Data into a Phylogeny

sampleRanges

Sampling Taxon Ranges

timePaleoPhy

Timescaling of Paleo-Phylogenies

paleotree-package

paleotree: Paleontological and Phylogenetic Analyses of Evolution

SamplingConv

Converting Sampling Estimates

getSampRateCont

Fit Models of Sampling Rates to Continuous-Time Taxon Ranges

simFossilTaxa

Simulating Taxa in the Fossil Record

plotTraitgram

Plot a Traitgram for Continuous Traits

taxa2cladogram

Convert Simulated Taxon Data into a Cladogram

cladogeneticTraitCont

Simulate Cladogenetic Trait Evolution

srcTimescaling

SampRate-Calibrated Timescaling of Paleo-Phylogenies

binTimeData

Bin Temporal Ranges in Discrete Intervals

depthRainbow

Paint Tree Branch Depth by Color

unitLengthTree

Scale Tree to Unit-Length

modifyTerminalBranches

Modify or Drop Terminal Branches of Various Types

compareTimescaling

Comparing the Time-Scaling of Trees

getSampProbDisc

Fit Models of Sampling Probability to Discrete-Interval Taxon Ranges