Abstract
AbstractWith the increasing availability of high-quality genome assemblies, pangenome graph is emerging as a new paradigm in the genomics field for identifying, encoding, and interpreting genomic variation landscape at both population and species levels. To facilitate a better examination of pangenome graph towards novel biological insights, here we present VRPG, a web-based interactive viewer of pangenome graph. VRPG provides dynamic and efficient support for exploring and annotating pangenome graphs built upon hundreds of whole genome assemblies along a reference-based coordinate system. Moreover, VRPG shines with its unique features in highlighting the directed path of any graph-constitutive assembly as well as in denoting copy number variation of genomic segments represented by graph-constitutive nodes, which are highly valuable in genome comparison and variant analysis. To further demonstrate its features and scalability, we applied VRPG to the cutting-edge yeast and human reference pangenome graphs derived from hundreds of high-quality genome assemblies via a dedicated website (https://www.evomicslab.org/app/vrpg/).Contact:yuejiaxing@gmail.com
Publisher
Cold Spring Harbor Laboratory