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Data · dataset · 2021

katholt/sonneityping: v20210201

Listed in LSHTM Data Compass

A Python script to parse Mykrobe predict results for Shigella sonnei.

Description

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).

Links

Where it is published

Catalogue records · 1

Topics

From keywords
Earth & Environmental Science · Humanities · Life Sciences · Medicine & Health · Social Science
Inferred from text
Bioinformatics and computational biology 68%
Provenance · 1 source records, 9 field assertions
SourceKeyLast seenRaw
LSHTM Data Compassoai:datacompass.lshtm.ac.uk:243010 d agoJSON v1
FieldAssertionExtractorEvidence
concepts[field].anzsrc:group:3102enrichment · lshtm ac uktaxonomy-embedding@1.0.0title+keywords+description (68%)
concepts[field].local:field:earth-environmentalmapping · lshtm ac ukconnector:lshtm_ac_uk@1.0.0
concepts[field].local:field:humanitiesmapping · lshtm ac ukconnector:lshtm_ac_uk@1.0.0
concepts[field].local:field:life-sciencesmapping · lshtm ac ukconnector:lshtm_ac_uk@1.0.0
concepts[field].local:field:medicine-healthmapping · lshtm ac ukconnector:lshtm_ac_uk@1.0.0
concepts[field].local:field:social-sciencemapping · lshtm ac ukconnector:lshtm_ac_uk@1.0.0
descriptionsource · lshtm ac ukconnector:lshtm_ac_uk@1.0.0/metadata/dc/description
publication_datesource · lshtm ac ukconnector:lshtm_ac_uk@1.0.0
titlesource · lshtm ac ukconnector:lshtm_ac_uk@1.0.0/metadata/dc/title