Juicebox is visualization software for Hi-C data. In this distribution, we include both the visualization software itself and command line tools for creating and analyzing files that can be loaded into Juicebox.
If you use Juicebox in your research, please cite:
Neva C. Durand, James T. Robinson, Muhammad S. Shamim, Ido Machol, Jill P. Mesirov, Eric S. Lander, and Erez Lieberman Aiden. "Juicebox provides a visualization system for Hi-C contact maps with unlimited zoom." Cell Systems 3(1), 2016.
The files included in this distribution are as follows:
Executables for Juicebox can be downloaded from http://aidenlab.org/juicebox
The latest command line tools jar can be downloaded from http://aidenlab.org/commandlinetools