Hattie E. Webb

Jaccard Index Network Analysis for pangenome analysis

JINA is a workflow that integrates existing tools to analyze bacterial genomes via a network approach, enabling visualization and identification of genomic patterns and associations.

Harnessing the pangenome for genomic surveillance: Salmonella enterica serotype Typhi as a paradigm

The paper introduces a method to measure pangenome relatedness using Jaccard Index and a novel distance metric to capture both vertical and horizontal gene transfer in Salmonella Typhi, enhancing genomic surveillance.

COPLA, a taxonomic classifier of plasmids

COPLA assigns plasmids to existing PTUs and identifies potential new PTUs, with 41% of samples assigned and 4% suggesting new classifications.