Pan-genome Explorer

PanExplorer performs pan-genome analysis based on the PGAP pipeline and exposes resulting information as a comprehensive and easy way, through several modules facilitating the exploration gene clusters and interpretation of data.

Browse pan-genome projects Import genomes as a new project

How to cite Dereeper A, Summo M, Meyer DF. (2022) PanExplorer: a web-based tool for exploratory analysis and visualization of bacterial pan-genomes. Bioinformatics
https://doi.org/10.1093/bioinformatics/btac504


The application allows interactive data exploration at different levels :

(i) Pan-genome visualization as a presence/absence heatmap. This overview allows to easily identify and distinguish core-genes (present in all strains), cloud genes (genes from the accessory genome) and genome-specific genes.

(ii) Physical map of core-genes and strain-specific genes can be displayed as a circular genomic representation (Circos), for each genome taken independently.

(iii) Synteny analysis. The conservation of gene order between genomes can be investigated using graphical representations

(iv) Visual inspection of a specific cluster.

For general questions, comments or problems about the site or the data, please contact us at alexis.dereeper@ird.fr