Set this up via IntelliJ Preferences -> Compiler. You'll need to do is be sure *.sizes is included as a file to be copied over to the class files. Then go to VCS -> checkout from version control. Then you'll point to it (IntelliJ has lots of documentation on this sort of thing). To set up in IDEA, have the Java SDK installed Use IntelliJ IDEA (Community edition - free) Durand, and Olga Dudchenko.įor FAQs, or for asking new questions, please see our forum: /forum.html. Ongoing development work is carried out by Muhammad Saad Shamim, Neva C. Past contributors include Ido Machol, Zulkifl Gire, Marie Hoeger, Fanny Huang, Nam Hee Kim, Vi Nguyen, Jay Ryu, Nathaniel T. Module website for more details on how to use Juicebox for assembly. Juicebox can now be used to visualize and interactively (re)assemble genomes. To usage of command line tools and the Juicebox jar files. Detailed documentation isĪvailable on the wiki. This distribution includes the source code for Juicebox is visualization software for Hi-C data. POSSUMM for new C++ code to rapidly calculate A-B compartments (i.e.hic files into C++, python, R, and MATLAB. Straw to quickly read and stream data from.hic files into Java, and is used by the above repositories. Java Straw to quickly read and stream data from.hic files (HiCCUPS, Arrowhead, APA, etc.) JuicerTools for downstream analysis of.JuiceboxGUI for visualization of Hi-C maps with Juicebox Desktop and genome assembly correction with Assembly Tools.This codebase is in the process of being split up to better support long-term maintenance and modular aspects of different tools
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