Abstract

We propose the novel tool PanFR, which accomplishes an interactive visualization of pan-genomes via approximating their de Bruijn Graphs with the corresponding iFR (interesting Frequented Region) clusters as the nodes, and the paths which the genomic sequences take between these clusters as the edges.

Tool Structure and Utilities

The tool is split into two applications, the serverlet and browser GUI, allowing for collaborative pan-genome exploration, along with rich interactive visual queries for data analysis.

The utilities of the tool can be broadly split into one of three categories

1. iFR Clustering and Hierarchies Construction Algorithm
2. Visualization Construction and Dynamic State-Update Handler
3. Visual Queries for Data Analysis

Of these, the computation for (1) and (2) takes place on the serverlet, while that for (3) takes place in the user’s web browser.