IGV

The Broad Institute's Integrative Genomics Viewer (IGV) is a high-performance desktop application for interactive exploration of massive genomic datasets.

IGV handles massive scale genomic data with zero lag. It supports standard formats like BAM (alignments), VCF (variants), and BED (annotations) across hundreds of reference genomes including hg38 and mm39. Researchers use the desktop application or the igv.js library to visualize RNA-seq coverage, ChIP-seq peaks, and structural variations. The tool integrates directly with the Broad Institute's hosted data tracks (ENCODE, 1000 Genomes) and local server environments. It remains the industry standard for manual variant calling validation and multi-omic data integration.

https://software.broadinstitute.org/software/igv/