JBrowse

JBrowse is a web‑based genome browser that can also run on a desktop or be embedded in other applications. It visualizes a wide range of genomic data, including structural variants, synteny, and protein 3‑D structures, and offers linked linear, circular, dot‑plot, and phylogenetic tree views. Users can hover over variants to see their position on protein structures, and the tool supports common formats such as BAM, CRAM, VCF, GFF, BED, BigBed, and BigWig.

The platform is built for extensibility; a plugin ecosystem lets developers add new view types, track types, and data adapters, turning JBrowse into a modular computational environment for integrating diverse biological datasets. It is released under the Apache License 2.0 and is maintained by the JBrowse Consortium, which reports research citations as a metric of impact.

JBrowse targets researchers and bioinformaticians who need an interactive, customizable interface for exploring genomic data across multiple formats and visual representations, and it is supported by funding from NIH, the Chan Zuckerberg Initiative, and other research institutions.