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clootl

An R package for interfacing with the clootl tree

This is the home for the clootl project, aka the SapsuckerTree, a collaboration between the Cornell Lab of Ornithology and the Open Tree of Life to produce a global avian phylogeny in the Clements taxonomy.

Is the tree ready to use?

Yes. We're there yet. Get into it.

How do I get access to it?

Easy:

library(devtools)
install_github("eliotmiller/clootl")
library(clootl)
?getCitations

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Install

install.packages('clootl')

Monthly Downloads

180

Version

0.1.2

License

GPL-3

Issues

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Maintainer

Eliot Miller

Last Published

October 29th, 2025

Functions in clootl (0.1.2)

taxonomyGet

Load a bird taxonomy into the R environment
getCitations

Identify contributing studies
clootl_data

A complex data store used in the package.
sampleTrees

Extract a cloud of trees from the complete Avian Phylogeny for a set of species
extractTree

Extract a complete or pre-pruned phylogeny from the clootl datastore
get_avesdata_repo

Download the AvesData full repository
set_avesdata_repo_path

Set path to Aves Data folder
treeGet

Helper to load a tree into the R environment