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Phylotastic specifications


Unique identifier OMICS_23509
Name Phylotastic
Interface Web user interface
Restrictions to use None
Input data An url, a document or a taxon.
Input format TXT,ZIP,PDF
Output data A tree.
Programming languages Java, Javascript, Perl, PHP, Python, R, SPARQL, awk
License BSD 3-clause “New” or “Revised” License, GNU General Public License version 3.0, MIT License
Computer skills Basic
Stability Stable
Maintained No



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Additional information

Publications for Phylotastic

Phylotastic citations


Variation in recombination frequency and distribution across eukaryotes: patterns and processes

PMCID: 5698618
PMID: 29109219
DOI: 10.1098/rstb.2016.0455

[…] kedly (absolute(LG–HCN)/HCN > 0.7). In our analyses, we controlled for phylogeny by fitting a Phylogenetic Generalized Linear Model with the R Package ‘Caper’ []. The phylogeny was obtained using the Phylotastic Web Service (, which extracts a Supertree from openTree []. All branch lengths […]


Toward a Self Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa

Syst Biol
PMCID: 5410925
PMID: 27616324
DOI: 10.1093/sysbio/syw066

[…] al units for ancestral range analyses (; Töpel et al., this issue); the estimation of rates of migration, speciation, and extinction; extracting subtrees from global species-level chronograms (; among numerous other macroevolutionary and biogeographical analyses, some of which are exemplified here for the palms.Our approach for inferring phylogenies first produces a backbone […]


Advancing data reuse in phyloinformatics using an ontology driven Semantic Web approach

BMC Med Genomics
PMCID: 3980757
PMID: 24565381
DOI: 10.1186/1755-8794-6-S3-S5

[…] voBio 2011 [], the W3C Workshop on Data and Services Integration [], Translational Medicine Conference at AMIA 2012 [,] and IEEE International Conference on Bioinformatics and Biomedicine []. Recent "PhyloTastic" hackathons [] have also developed resources to promote the reuse of published trees and underlying metadata.Other prior art with regard to the Semantic Web-ready definition of phylogeny-r […]


taxize: taxonomic search and retrieval in R

PMCID: 3901538
PMID: 24555091
DOI: 10.12688/f1000research.2-191.v2

[…] The correct spellings are Helianthus annuus and Homo sapiens. Another approach uses the Taxonomic Name Resolution Service via the Taxosaurus API http:// developed by iPLant and the Phylotastic organization. In this example is a list of species names, some of which are misspelled, and then call the API with the tnrs function. mynames <- c ( "Helianthus annuus" ٫ "Pinus contort […]


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Phylotastic institution(s)
Department of Computer Science, New Mexico State University, Box 30001, MSC CS, Las Cruces, NM, USA; Institute for Bioscience and Biotechnology Research, Rockville, MD, USA; Ft. Lauderdale Research and Education Center, University of Florida/IFAS, Davie, FL, USA; Department of Ecology and Evolutionary Biology, University of Tennessee, Knoxville, TN, USA; Illinois Natural History Survey, Species File Group, University of Illinois, Champaign, IL, USA; Office of Data and Informatics, NIST, Gaithersburg, MD, USA
Phylotastic funding source(s)
Supported by funding from the US National Science Foundation (award 1458572).

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