typhoidgenomics/TyphoidGenomicsConsortiumMykrobe
Ingle, DJ
; Holt, KE and Dyson, ZA
(2025).
typhoidgenomics/TyphoidGenomicsConsortiumMykrobe.
[Dataset].
Zenodo.
https://doi.org/10.5281/zenodo.17117922
; Holt, KE and Dyson, ZA
(2025).
typhoidgenomics/TyphoidGenomicsConsortiumMykrobe.
[Dataset].
Zenodo.
https://doi.org/10.5281/zenodo.17117922
This repository holds the tabulated data and code behind the paper of the Global Typhoid Genomics Consortium, "Typhi Mykrobe: fast and accurate lineage identification and antimicrobial resistance genotyping directly from sequence reads for the typhoid fever agent Salmonella Typhi" published in Genome Medicine, 2025 (preprint available in BioRxiv). Note that Typhi Mykrobe is not a QC tool. It is recommended that users continue to undertake their own QC on short and long read data.
Alternative Title
Data and Code Supporting Typhi Mykrobe Development and Validation
Keywords
lineage identification; Antimicrobial resistance; Salmonella typhi; Typhoid fever; genotyping| Item Type | Dataset |
|---|---|
| Resource Type |
Resource Type Resource Description Software R script |
| Capture method | Other |
| Date | 14 September 2025 |
| Language(s) of written materials | English |
| Creator(s) |
Ingle, DJ; Holt, KE and Dyson, ZA
|
| LSHTM Faculty/Department | Faculty of Infectious and Tropical Diseases > Department of Infection Biology |
| Participating Institutions | London School of Hygiene & Tropical Medicine, London, United Kingdom; The University of Melbourne: Melbourne, Victoria, Australia |
| Date Deposited | 15 Sep 2025 08:42 |
| Last Modified | 06 Feb 2026 10:11 |
| Publisher | Zenodo |
No files available. Please consult associated links.
