GraphSNP: an interactive distance viewer for investigating outbreaks and transmission networks using a graph approach.

ABSTRACT:

Background

Cluster and transmission analysis utilising pairwise SNP distance are increasingly used in genomic epidemiological studies. However, current methods are often challenging to install and use, and lack interactive functionalities for easy data exploration.

Results

GraphSNP is an interactive visualisation tool running in a web browser that allows users to rapidly generate pairwise SNP distance networks, investigate SNP distance distributions, identify clusters of related organisms, and reconstruct transmission routes. The functionality of GraphSNP is demonstrated using examples from recent multi-drug resistant bacterial outbreaks in healthcare settings.

Conclusions

GraphSNP is freely available at https://github.com/nalarbp/graphsnp . An online version of Graph

SUBMITTER: Permana B 

PROVIDER: S-EPMC10199467 | biostudies-literature | 2023 May

REPOSITORIES: biostudies-literature