Phylotastic statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Phylotastic
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Tool usage distribution map

This map represents all the scientific publications referring to Phylotastic per scientific context
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Associated diseases

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Popular tool citations

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Phylotastic specifications

Information


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

Documentation


Maintainers


This tool is not available anymore.

Additional information


http://phylo.cs.nmsu.edu:3000/static_pages/help

Publications for Phylotastic

Phylotastic citations

 (4)
library_books

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

2017
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 (https://github.com/phylotastic/phylo_services_docs/blob/master/ServiceDescription/PhyloServicesDescription.md), which extracts a Supertree from openTree []. All branch lengths […]

library_books

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

2016
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 (http://phylotastic.org); 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 […]

library_books

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

2013
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 […]

library_books

taxize: taxonomic search and retrieval in R

2013
F1000Res
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:// taxosaurus.org/ 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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