katholt/sonneityping: v20210201

Holt, KEORCID logo, Hawkey, JORCID logo and Paranagama, K (2021). katholt/sonneityping: v20210201. [Dataset]. Zenodo. https://doi.org/10.5281/zenodo.4609812
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A Python script to parse Mykrobe predict results for Shigella sonnei. Mykrobe v0.9.0+ can identify input genomes as S. sonnei, assign those identified as S. sonnei to hierarchical genotypes based on detection of single nucleotide variants (SNVs; defined in the file alleles.txt), and report known mutations in the quinolone-resistance determining region (QRDR) of genes gyrA (S83L, D87G, D87Y) and parC (S80I).

Keywords

Mykrobe, Shigella sonnei

Item Type Dataset
Capture method Other
Date 17 March 2021
Language(s) of written materials English
Creator(s) Holt, KEORCID logo, Hawkey, JORCID logo and Paranagama, K
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 Aug 2021 10:39
Last Modified 07 Aug 2021 10:39
Publisher Zenodo

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