IGV 2.0 integrates support for Goby NGS file formats.  Goby is an NGS data management framework designed to facilitate the implementation of efficient data analysis pipelines. It provides  efficient file formats to store NGS data and intermediary analysis results.

For more information on these file formats, see the Goby NGS Framework Web site. For details on current and planned Goby support in IGV see the IGV development wiki.