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scirun website  

SCIRun is a Problem Solving Environment (PSE), for modeling, simulation and visualization of scientific problems. SCIRun now includes the biomedical components formally released as BioPSE, as well as BioMesh3D.

Environment Modules

Run module spider scirun to find out what environment modules are available for this application.

System Variables

  • HPC_SCIRUN_DIR - installation directory
  • HPC_SCIRUN_BIN - executable directory
  • BRAINSTIMULATOR - brain stimulator directory


If you publish research that uses scirun you have to cite it as follows:

SCIRun is an Open Source software project that is principally funded through the SCI Institute's NIH/NIGMS CIBC Center. Please use the following acknowledgment and send us references to any publications, presentations, or successful funding applications that make use of NIH/NIGMS CIBC software or data sets. "This project was supported by the National Institute of General Medical Sciences of the National Institutes of Health under grant numbers P41 GM103545 and R24 GM136986.”