Fecha/hora: 12/06/2024 05:08:39

Biblioteca(s): 	INIA Las Brujas.	
Fecha corriente: 	23/03/2020	
Fecha de la última actualización: 	23/03/2020	
Autoria: 	FERRÉS, I.; FRESIA, P.; IRAOLA, G.	
Afiliación: 	IGNACIO FERRÉS, Microbial Genomics Laboratory, Institut Pasteur Montevideo, Montevideo, Uruguay.; PABLO FRESIA, Microbial Genomics Laboratory, Institut Pasteur Montevideo, Montevideo, Uruguay; Unidad Mixta UMPI, Institut Pasteur Montevideo + INIA, Montevideo, Uruguay; GREGORIO IRAOLA, Microbial Genomics Laboratory, Institut Pasteur Montevideo, Montevideo, Uruguay; Center for Integrative Biology, Universidad Mayor, Santiago de Chile, Chile; Wellcome Sanger Institute, Hinxton, United Kingdom.	
Título: 	simurg: simulate bacterial pangenomes in R. (Application note)	
Año de publicación: 	2020	
Fuente/Imprenta: 	Bioinformatics, 15 February 2020, Volume 36, Issue 4, Pages 1273-1274. Doi: https://doi.org/10.1093/bioinformatics/btz735	
ISSN: 	1367-4803	
DOI: 	10.1093/bioinformatics/btz735	
Idioma: 	Inglés	
Notas: 	Article history: Received: 19 March 2019 / Revision received: 06 August 2019 / Accepted: 25 September 2019 / Published: 04 October 2019.
Corresponding author:   Ferrés, I.; Microbial Genomics Laboratory, Institut Pasteur Montevideo, Uruguay; email:iferres@pasteur.edu.uy	
Contenido: 	ABSTRACT.
Motivation: The pangenome concept describes genetic variability as the union of genes shared in a set of genomes and constitutes the current paradigm for comparative analysis of bacterial populations. However, there is a lack of tools to simulate pangenome variability and structure using defined evolutionary models. Results: We developed simurg, an R package that allows to simulate bacterial pangenomes using different combinations of evolutionary constraints such as gene gain, gene loss and mutation rates. Our tool allows the straightforward and reproducible simulation of bacterial pangenomes using real sequence data, providing a valuable tool for benchmarking of pangenome software or comparing evolutionary hypotheses. © 2020 Oxford University Press. All rights reserved.	
Palabras-Clave: 	Benchmarking; Genome analysis; Mutation rate; Software.	
Categoría del tema: 	A50 Investigación agraria	
Registro original: 	INIA Las Brujas (LB)	
Ejemplares: 	LB - (102234-1) - PXI - AP - DD - PP/BIOINFORMATICS/2020 -  -  - DIS