STRAIN: an R package for multi-locus sequence typing from whole genome sequencing data

STRAIN: an R package for multi-locus sequence typing from whole genome sequencing data

Abstract Background Multi-locus sequence typing (MLST) is a standard typing technique used to associate a sequence type (ST) to a bacterial isolate. When the output of whole genome sequencing (WGS) of a sample is available the ST can be assigned directly processing the read-set. Current approaches e...

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Bibliographic Details
Main Authors: Mattia Dalsass, Margherita Bodini, Christophe Lambert, Marie-Cécile Mortier, Marco Romanelli, Duccio Medini, Alessandro Muzzi, Alessandro Brozzi
Format: Article
Language:English
Published: BMC 2019-11-01
Series:BMC Bioinformatics
Subjects:
Whole genome sequencing (WGS)
Multi locus sequence type (MLST)
Sequence type (ST)
R package
Online Access:http://link.springer.com/article/10.1186/s12859-019-2887-1

Internet

http://link.springer.com/article/10.1186/s12859-019-2887-1

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