AMRViz enables seamless genomics analysis and visualization of antimicrobial resistance.
BMC Bioinformatics
; 25(1): 193, 2024 May 16.
Article
en En
| MEDLINE
| ID: mdl-38755527
ABSTRACT
We have developed AMRViz, a toolkit for analyzing, visualizing, and managing bacterial genomics samples. The toolkit is bundled with the current best practice analysis pipeline allowing researchers to perform comprehensive analysis of a collection of samples directly from raw sequencing data with a single command line. The analysis results in a report showing the genome structure, genome annotations, antibiotic resistance and virulence profile for each sample. The pan-genome of all samples of the collection is analyzed to identify core- and accessory-genes. Phylogenies of the whole genome as well as all gene clusters are also generated. The toolkit provides a web-based visualization dashboard allowing researchers to interactively examine various aspects of the analysis results. Availability:
AMRViz is implemented in Python and NodeJS, and is publicly available under open source MIT license at https//github.com/amromics/amrviz .Palabras clave
Texto completo:
1
Colección:
01-internacional
Base de datos:
MEDLINE
Asunto principal:
Programas Informáticos
/
Genoma Bacteriano
/
Genómica
Idioma:
En
Revista:
BMC Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2024
Tipo del documento:
Article
País de afiliación:
Vietnam