Epiviz is an interactive visualization tool for functional genomics data. It supports genome navigation like other genome browsers, but allows multiple visualizations of data within genomic regions using scatterplots, heatmaps and other user-supplied visualizations. It also includes data from the Gene Expression Barcode project for transcriptome visualization. It has a flexible plugin framework so users can add d3 visualizations. You can see a video tour here.
The Epivizr Bioconductor package implements two-way communication between the R/Bioconductor computational genomics environment and Epiviz 4. Objects in an R session can be displayed as tracks or plots on Epiviz 4. Epivizr uses WebSockets for communication between the browser JavaScript client and the R environment, the same technology underlying the popular Shiny system for authoring interactive web-based reports in R.