typhoidgenomics/genotyphi

Holt, KEORCID logo, Dyson, ZAORCID logo, Hawkey, J and flashton2003 (2024). typhoidgenomics/genotyphi. [Dataset]. Zenodo. https://doi.org/10.5281/zenodo.4707613
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This repository houses the GenoTyphi genotyping scheme for Salmonella Typhi. It also describes how to call genotypes, AMR and plasmid markers from Typhi whole-genome sequence reads using Mykrobe ('Typhi Mykrobe') and provides links to alternative tools for calling genotypes from reads or assemblies.

Alternative Title

genotyphi

Keywords

Antimicrobial resistance, Pathogen genotyping, Salmonella Typhi, typhoid fever, Whole-genome sequencing

Item Type Dataset
Capture method Other
Date 30 September 2024
Language(s) of written materials English
Creator(s) Holt, KEORCID logo, Dyson, ZAORCID logo, Hawkey, J and flashton2003
LSHTM Faculty/Department Faculty of Infectious and Tropical Diseases > Dept of Immunology and Infection (-2019)
Participating Institutions London School of Hygiene & Tropical Medicine, London, United Kingdom
Date Deposited 07 Feb 2022 10:05
Last Modified 03 Oct 2024 09:49
Publisher Zenodo

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