HyAsP, a greedy tool for plasmids identification.
Bioinformatics
; 35(21): 4436-4439, 2019 11 01.
Article
em En
| MEDLINE
| ID: mdl-31116364
ABSTRACT
MOTIVATION Plasmids are ubiquituous in bacterial genomes, and have been shown to be involved in important evolutionary processes, in particular the acquisition of antimicrobial resistance. However separating chromosomal contigs from plasmid contigs and assembling the later is a challenging problem. RESULTS:
We introduce HyAsP, a tool that identifies, bins and assembles plasmid contigs following a hybrid approach based on a database of known plasmids genes and a greedy assembly algorithm. We test HyAsP on a large sample of bacterial datasets and observe that it generally outperforms other tools. AVAILABILITY AND IMPLEMENTATION https//github.com/cchauve/HyAsP. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
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Base de dados:
MEDLINE
Assunto principal:
Software
Tipo de estudo:
Diagnostic_studies
Idioma:
En
Ano de publicação:
2019
Tipo de documento:
Article