typhoidgenomics/genotyphi
Holt, KE
; Dyson, ZA; Hawkey, J and flashton2003
(2024).
typhoidgenomics/genotyphi.
[Dataset].
Zenodo.
https://doi.org/10.5281/zenodo.4707613
; Dyson, ZA; Hawkey, J and flashton2003
(2024).
typhoidgenomics/genotyphi.
[Dataset].
Zenodo.
https://doi.org/10.5281/zenodo.4707613
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 |
|---|---|
| Resource Type |
Resource Type Resource Description Software Python |
| Capture method | Other |
| Date | 30 September 2024 |
| Language(s) of written materials | English |
| Creator(s) |
Holt, KE; Dyson, ZA; 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 | 06 Feb 2026 10:11 |
| Publisher | Zenodo |
No files available. Please consult associated links.
