Various phylogenetic datasets for comparative analysis.
data(anole.data)
data(anoletree)
data(ant.geog)
data(ant.tree)
data(bat.tree)
data(bat_virus.data)
data(betaCoV.tree)
data(bonyfish.data)
data(bonyfish.tree)
data(butterfly.data)
data(butterfly.tree)
data(cordylid.data)
data(cordylid.tree)
data(darter.tree)
data(eel.data)
data(eel.tree)
data(elapidae.tree)
data(flatworm.data)
data(flatworm.tree)
data(liolaemid.tree)
data(mammal.data)
data(mammal.geog)
data(mammal.tree)
data(primate.data)
data(primate.tree)
data(salamanders)
data(sunfish.data)
data(sunfish.tree)
data(tortoise.geog)
data(tortoise.tree)
data(tropidurid.data)
data(tropidurid.tree)
data(vertebrate.data)
data(vertebrate.tree)
data(wasp.data)
data(wasp.trees)
data(whale.tree)
anoletree
is an object of class "simmap"
. anole.data
is a data frame.
ant.tree
is an object of class "phylo"
. ant.geog
is a vector.
bat.tree
and betaCoV.tree
are objects of class "phylo"
. bat_virus.data
is a data frame.
bonyfish.tree
is an object of class "phylo"
. bonyfish.data
is a data frame.
butterfly.tree
is an object of class "phylo"
. butterfly.data
is a data frame.
cordylid.tree
is an object of class "phylo"
. cordylid.data
is a data frame.
darter.tree
is an object of class "phylo"
.
eel.tree
is an object of class "phylo"
. eel.data
is a data frame.
elapidae.tree
is an object of class "phylo"
.
flatworm.tree
is an object of class "phylo"
. flatworm.data
is a data frame.
liolaemid.tree
is an object of class "phylo"
. liolaemid.data
is a data frame.
mammal.tree
is an object of class "phylo"
. mammal.data
is a data frame. mammal.geog
is a numerical matrix.
primate.tree
is an object of class "phylo"
. primate.data
is a data frame.
salamanders
is an object of class "phylo"
.
sunfish.tree
is an object of class "simmap"
. sunfish.data
is a data frame.
tortoise.tree
is an object of class "phylo"
. tortoise.geog
is a data frame.
tropidurid.tree
is an object of class "simmap"
. tropidurid.data
is a data frame.
vertebrate.tree
is an object of class "phylo"
. vertebrate.data
is a data frame.
wasp.trees
is an object of class "multiPhylo"
. wasp.data
is a data frame.
whale.tree
is an object of class "phylo"
.
anoletree
is a phylogeny of Greater Antillean anole species with a mapped discrete character - ecomorph class. anole.data
is a data frame of morphological characters. Data and tree are from Mahler et al. (2010).
ant.tree
is a phylogeny containing 84 species of fungus farming attine ants. ant.geog
is a vector containing biogegraphic information for the species of the tree. Both the phylogeny and biogeographic information were originally published by Branstetter et al. (2017).
bat.tree
is a ML phylogeny of bats from the families Mormoopidae, Molossidae, and Phyllostomidae, based on GenBank accession numbers reported in Caraballo (2022) and estimated using phangorn. betaCoV.tree
is a ML phylogenetic tree of betacoronaviruses based on GenBank accession numbers reported in Caraballo (2022) and estimated using phangorn. bat_virus.data
is an association table of host and virus from Caraballo (2022).
butterfly.tree
and butterfly.data
are a phylogeny and dataset of habitat use in Mycalesina butterflies from Halali et al. (2020). The phylogeny of that study was adapted from one originally published by Brattstrom et al. (2020).
bonyfish.tree
and bonyfish.data
are a phylogeny and dataset of spawning mode and parental care in bony fishes from Benun Sutton and Wilson (2019). Their phylogenetic tree was adapted from a tree originally published by Betancur-R et al. (2017)
cordylid.tree
and cordylid.data
are a phylogeny and dataset of morphological traits for three different principal components axes from Broeckhoven et al. (2016).
darter.tree
is a phylogeny of 201 species of darter fish (Etheostomatinae) from Near et al. (2011).
eel.tree
and eel.data
are a phylogeny and dataset of feeding mode and maximum total length from 61 species of elopomorph eels from Collar et al. (2014).
elapidae.tree
is a reconstructed phylogeny containing 175 species of snakes of the family Elapidae from Lee et al. (2016).
flatworm.tree
and flatworm.data
are a phylogeny and dataset of habitat preferences for flatworms from Benitez-Alvarez et al. (2020). flatworm.tree
has been made ultrametric using penalized likelihood.
liolaemid.tree
and liolaemid.data
are a phylogenetic tree and phenotypic trait dataset of lizards from the family Liolaemidae from Esquerre et al. (2019).
mammal.tree
and mammal.data
are the phylogeny and dataset for mammal body size and home range size from Garland et al. (1992). mammal.geog
is a matrix containing geographic coordinates for various of the species in mammal.tree
pulled from citizen science observations registered on the iNaturalist web platform.
primate.tree
and primate.data
are a phylogeny and phenotypic trait dataset from Kirk and Kay (2004).
salamanders
is a phylogeny of Plethodon salamanders from Highton and Larson (1979). According to Wikipedia, the genus Plethodon contains 55 species in total.
sunfish.tree
and sunfish.data
are the phylogeny and dataset for Centrarchidae and buccal morphology (respectively) from Revell and Collar (2009).
tortoise.tree
and tortoise.geog
are a phylogeny and dataset of geographic coordinates for Galapagos tortoises. The geographic locality information was approximated from Figure 1 of Poulakakis et al. (2020), and the tree was estimated from nucleotide sequence data published with the same study.
tropidurid.tree
and tropidurid.data
are the phylogeny and bivariate quantitative trait dataset of tropidurid lizards from Revell et al. (2022).
vertebrate.tree
is a time-calibrated phylogeny of vertebrates and vertebrate.data
is a dataset of phenotypic traits. The phylogeny is from http://www.timetree.org/ (Hedges et al. 2006).
wasp.trees
and wasp.data
are the phylogeny and host-parasite associations from Lopez-Vaamonde et al. (2001).
whale.tree
is a phylogeny of cetaceans originally published in Steeman et al. (2009).