2016 July ; 3(1): 99–101. | Neva C. Durand, James T. Robinson, Muhammad S. Shamim, Ido Machol, Jill P. Mesirov, Eric S. Lander, Erez Lieberman Aiden
Juicebox is a visualization tool designed for exploring Hi-C contact maps, which are used to study how genomes fold in three dimensions. The tool allows users to interactively zoom in and out of Hi-C maps, similar to zooming in and out of a geographic map on Google Earth. Juicebox integrates various technologies and methods specifically designed for handling 2D contact data, enabling users to normalize maps, compare them to 1D tracks, and compare multiple maps side by side. It supports the visualization of features ranging from loops anchored at 20-bp CTCF sites to territories spanning 200-Mb chromosomes. Users can create their own heatmaps and explore their own experiments. Juicebox has been instrumental in making biological discoveries across various scales and is available as a Java application, with the code open-source and licensed under the MIT license.Juicebox is a visualization tool designed for exploring Hi-C contact maps, which are used to study how genomes fold in three dimensions. The tool allows users to interactively zoom in and out of Hi-C maps, similar to zooming in and out of a geographic map on Google Earth. Juicebox integrates various technologies and methods specifically designed for handling 2D contact data, enabling users to normalize maps, compare them to 1D tracks, and compare multiple maps side by side. It supports the visualization of features ranging from loops anchored at 20-bp CTCF sites to territories spanning 200-Mb chromosomes. Users can create their own heatmaps and explore their own experiments. Juicebox has been instrumental in making biological discoveries across various scales and is available as a Java application, with the code open-source and licensed under the MIT license.