Files available: Github repo crisporPaper with all code for the analysis paper Github repo crisporWebsite with all code used by the website. Since Version 4.0, non-academic users have to obtain a license for local installations, see usage license . A virtualBox virtual machine image for Windows/OSX/Linux that includes CRISPOR. You can use this to run CRISPOR on your own computer, on Windows, OSX or Linux Install VirtualBox for your operating system first, Windows, OSX or Linux Download the virtual machine image (~1GB, free for non-commercial use) If you already use another VM software (e.g. VMWare), download the virtual machine in OVA format (we have not tested all environments, let us know if you cannot import the OVA in your software) Extract the virtual machine image, double-click it or "Machine > Add" the file crispor.vbox file in VirtualBox When the virtual machine is running, point your internet browser to http://127.0.0.1:4444 Username is "crispor", password, "crispor". The user "crispor" has sudo rights on the machine Run the command "crisprUpdate" to update CRISPOR to the most current version Run the command "crisprDownload [genomeCode]" to download a genome, e.g. "crisprDownload hg38anset" To run the command line version, go to the directory /var/www/html/ and run crispor.py in the built-in terminal You can also ssh to port 2222 on localhost, e.g. ssh crispor@localhost -p 2222, password "crispor" To add your own genome, the easiest way forward may be to email us and ask us to add it to our site, then use crisprDownload. Otherwise, look at the script to add genomes, crisprAddGenome, in the tools directory. This script is using various external tools. You can find binary 64Bit static versions in the directory usrLocalBin/ under the tools directory. For feedback or comments, please do not hesitate to contact us by email.