(Translated by https://www.hiragana.jp/)
Kew Tree of Life Explorer - Release notes
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The Kew Tree of Life Explorer allows users to explore evolutionary trees of life and to
access the genomic data that underpin them. It is an output of the Plant and Fungal Trees
of Life Project (PAFTOL) at the Royal Botanic Gardens, Kew
(https://www.kew.org/science/our-science/projects/plant-and-fungal-trees-of-life), which
aims to discover and disseminate the evolutionary history of all plant and fungal genera
through phylogenetic approaches. Tree of Life data are periodically released via the Kew
secure file transfer protocol (SFTP) site (sftp.kew.org/pub/treeoflife) and are
additionally made available for interactive web-based exploration at
http://treeoflife.kew.org.
Data releases are identified with a major and a minor version number, separated by a ..
This document describes the contents of Kew Tree of Life Explorer data release 0.1.
Scope and methodology
=====================
This version of the Kew Tree of Life data set comprises data from 253 families, 303
genera and 308 species of angiosperms.
The phylogenetic approach used in the Tree of Life Explorer will be described fully in a
future publication.
This release was produced with the software listed below:
Trimmomatic v.0.390 https://doi.org/10.1093/bioinformatics/btu170
http://www.usadellab.org/cms/?page=trimmomatic
Paftools master-0.0.0-88-g6d438b9 https://github.com/RBGKew/pypaftol
Source nucleotide (DNA or RNA) data, either in the form of raw sequence reads, or
assembled transcripts or genomes, have either been downloaded from the European Nucleotide
Archive (ENA), or have been generated by PAFTOL and submitted to the ENA. A list of ENA
accession numbers used is included with every release
(see sftp.kew.org/pub/patfol/README.txt for a description of the contents of each
release).
Licensing
=========
Kew Tree of Life data (hereafter the data) are released under the Creative Commons
Attribution 4.0 International (CC BY 4.0) license
(https://creativecommons.org/licenses/by/4.0). To attribute the data, please follow our
citation guidelines (below) and reference the appropriate data release number.
In many cases, the data have been released prior to publication in the academic
literature, in accordance with the Toronto guidelines on pre-publication data sharing
(https://www.nature.com/articles/461168a). Users may freely analyse released
prepublication data, but should act responsibly by 1) respecting the scientific etiquette
that allows data producers to publish the first global analyses of their data set, 2)
accurately and completely citing the source of prepublication data, and 3) contacting the
data producers to discuss publication plans in the case of overlap between planned
analyses. Please contact us (at the email address below) if you have any questions about
what you may do with the data.
Citing us
=========
When using the Kew Tree of Life Explorer, or any associated data, you are requested to
cite a forthcoming paper by Baker et al. These release notes will be updated on
publication.
Meanwhile, you can cite these release notes as Kew Tree of Life Explorer v0.1
release notes, DOI: https://doi.org/10.34885/171
Contact us
==========
Please contact treeoflife AT kew DOT org for support or advice.