Salmonella Outbreak Genomic and Epidemiologic Data for Threshold Analysis (2017-2020)

14 multi-provincial Salmonella outbreaks in Canada from 2017 to 2020 provide the basis for a framework evaluating whole-genome sequencing clustering thresholds. The dataset includes genomic and epidemiologic data used to determine allele ranges optimizing cluster sensitivity and specificity. Author Benjamin Hetman published the supporting code and data on figshare in April 2026 under a CC-BY-4.0 license.

Use Cases

• Benchmarking wgMLST allele thresholds for outbreak detection based on genomic data.
• Evaluating the trade-off between sensitivity and specificity in genomic clustering based on described framework.
• Reproducing the analysis from the associated manuscript on optimal clustering thresholds.
• Training machine learning models to predict outbreak clusters based on allele distances.

Strengths

• Data supports a published methodological framework for a specific public health application.
• Includes 14 distinct multi-jurisdictional outbreak events over a 4-year period (2017-2020).
• Associated analysis code in R is provided for full reproducibility.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment for large-scale modeling.

Provenance

Source

Benjamin Hetman via figshare.

Collection Method

Genomic and epidemiologic data collected from multi-provincial/territorial Salmonella outbreaks.

Time Range

2017-2020

Freshness

Last updated 2026-04-18 18:04:43.

Geography

Canada