AMRViz enables seamless genomics analysis and visualization of antimicrobial resistance.
In: BMC Bioinformatics, Jg. 25 (2024-05-16), Heft 1, S. 1-10
Online
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Zugriff:
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. [ABSTRACT FROM AUTHOR]
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AMRViz enables seamless genomics analysis and visualization of antimicrobial resistance.
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Autor/in / Beteiligte Person: | Le, Duc Quang ; Nguyen, Son Hoang ; Nguyen, Tam Thi ; Nguyen, Canh Hao ; Ho, Tho Huu ; Vo, Nam S. ; Nguyen, Trang ; Nguyen, Hoang Anh ; Cao, Minh Duc |
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Zeitschrift: | BMC Bioinformatics, Jg. 25 (2024-05-16), Heft 1, S. 1-10 |
Veröffentlichung: | 2024 |
Medientyp: | academicJournal |
ISSN: | 1471-2105 (print) |
DOI: | 10.1186/s12859-024-05792-9 |
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