Gitools can interact and be interacted with through External Control of Gitools and is integrated with some web tools and platforms.
IGV is a genomics browser which can send heatmaps to Gitools through the load command. Gitools can then send ‘locate’ commands for selected rows in the heatmaps to IGV (https://www.broadinstitute.org/igv) via the IGV logo in the Gitools toolbar. This makes it easy to spot and compare genes of interest within IGV.
GenomeSpace (https://www.genomespace.org/) is a platform to store genomics data and connects multiple bioinformatics tools, Gitools included. Via the GenomeSpace icon in the toolbar, a user is able to connect to the server and download data sets.