GET_PHYLOMARKERS statistics

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GET_PHYLOMARKERS specifications

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Information

Unique identifier	OMICS_28334
Name	GET_PHYLOMARKERS
Software type	Application/Script
Interface	Command line interface
Restrictions to use	None
Operating system	Unix/Linux, Mac OS, Windows
Programming languages	R, Shell (Bash)
License	GNU General Public License version 3.0
Computer skills	Advanced
Version	1.2.6
Stability	Stable
Maintained	Yes

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Maintainer

Pablo Vinuesa <>

Additional information

https://github.com/vinuesa/get_phylomarkers/blob/master/docs/GET_PHYLOMARKERS_manual.html

Publication for GET_PHYLOMARKERS

GET_PHYLOMARKERS, a software package to select optimal orthologous clusters for phylogenomics and inferring pan-genome phylogenies, used for a critical geno-taxonomic revision of the genus Stenotrophomonas.

BioRxiv

DOI: 10.1101/294660

GET_PHYLOMARKERS in publication

GET_PHYLOMARKERS, a Software Package to Select Optimal Orthologous Clusters for Phylogenomics and Inferring Pan Genome Phylogenies, Used for a Critical Geno Taxonomic Revision of the Genus Stenotrophomonas

PMCID: 5938378

PMID: 29765358

DOI: 10.3389/fmicb.2018.00771

[…] reconstruction. these, if undetected, can result in erroneous or biased estimates, particularly when estimating species trees from concatenated datasets. to deal with these problems, we developed get_phylomarkers, a pipeline designed to identify high-quality markers to estimate robust genome phylogenies from the orthologous clusters, or the pan-genome matrix (pgm), computed by get_homologues. […]

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GET_PHYLOMARKERS institution(s)

Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico; Estación Experimental de Aula Dei - Consejo Superior de Investigaciones Científicas, Zaragoza, Spain; Fundación ARAID, Zaragoza, Spain

GET_PHYLOMARKERS funding source(s)

Supported by DGAPA/PAPIIT-UNAM (grants IN201806-2, IN211814 and IN206318) and CONACyT-México (grants P1-60071, 179133 and FC-2105-2-879), as well as the Fundación ARAID, Consejo Superior de Investigaciones Científicas (grant 200720I038 and Spanish MINECO (AGL2013-48756-R).

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