Hi Tash, Our open source tool GenomeFlow that can generate a 3D model in .gss format from HiC data and visualize it is released here: https://github.com/jianlin-cheng/GenomeFlow . Please try this tool on your data. It should work well. Let us know if you have any question about how to use it. Best, Jianlin Jianlin (Jack) Cheng, PhD William and Nancy Thompson Missouri Distinguished Professor Department of Electrical Engineering and Computer Science MU Informatics Institute University of Missouri -...