Designed especially for neurobiologists, FluoRender is an interactive tool for multi-channel fluorescence microscopy data visualization and analysis.
Large scale visualization on the Powerwall.
BrainStimulator is a set of networks that are used in SCIRun to perform simulations of brain stimulation such as transcranial direct current stimulation (tDCS) and magnetic transcranial stimulation (TMS).
Developing software tools for science has always been a central vision of the SCI Institute.
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Forward/Inverse Electrocardiography 

A toolkit for advancing the state of forward and inverse solutions in electrocardiography

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The Forward/Inverse toolkit is included with your download of SCIRun

Overview
Documentation
Support

Overview

The SCIRun ECG Forward/Inverse Toolkit is a collection of modules and networks within the SCIRun system which can be used to solve forward and inverse electrocardiography problems.

The purpose of this toolkit is to advance the state of forward and inverse solutions in this field by offering a common platform for investigators and others to compare geometries and geometric representations, forward and inverse algorithms and data, with the maximum degree of both flexibility and commonality that we can achieve. Thus, we hope to increase the "reproducibility" of developments in this field and help move these technologies closer to useful clinical applications. As such, the software (like all of SCIRun) is open-source, modular, and extensible. We follow modern open-source software engineering practices to maximize portability, extensibility, and reliability of our software. SCIRun has a built-in facility for connecting with Matlab so that processing can be carried out jointly using both programs. In addition, the ECG Forward/Inverse Toolkit features capabilities which allow the user to interface with ECGSim (http://www.ecgsim.org), a popular software package for solving certain types of forward ECG problems with a high degree of interactive control over source models).



Forward/Inverse Toolkit Acknowledgement
 Forward/Inverse Toolkit License
CIBC Acknowledgement


Acknowledgement: The Forward/Inverse Toolkit 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 number P41 GM103545-18."





BrainStimulator License

The Forward/Inverse Toolkit is available for free and open source under the MIT License

The MIT License Copyright (c) 2010 Scientific Computing and Imaging Institute, University of Utah. License for the specific language governing rights and limitations under Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.



NIH/NIGMS Center for Integrative Biomedical Computing Acknowledgment


CIBC software and the data sets provided on this web site are Open Source software projects that are principally funded through the SCI Institute's NIH/NIGMS CIBC SCIRun License For us to secure the funding that allows us to continue providing this software, we must have evidence of its utility. Thus we ask users of our software and data to acknowledge us in their publications and inform us of these publications. Please use the following acknowledgment and send us references to any publications, presentations, or successful funding applications that make use of the NIH/NIGMS CIBC software or data sets we provide.

"This project was supported by the National Institute of General Medical Sciences of the National Institutes of Health under grant number P41 GM103545-18."

Documentation

Documentation for the Forward/Inverse toolkit can be found with the SCIRun documentation.


Tutorials

Forward/Inverse toolkit pdf button

Support

SCIRun/Forward-Inverse Toolkit Mailing Lists
Reporting Bugs and Feature Requests

Joining the SCIRun Users Mailing List

  1. Compose an email to This email address is being protected from spambots. You need JavaScript enabled to view it. with the following in the body of message: subscribe scirun-users
  2. Nothing needed in the Subject line. Just send.
  3. You will receive a response from the list manager requesting confirmation. Just send back a reply message to confirm your subscription (no added text needed).
  4. Finally, you will receive a welcome message confirming that you have been added to the mailing list.

Unsubscribing

  1. Compose an email to This email address is being protected from spambots. You need JavaScript enabled to view it. with the following in the body of message: unsubscribe scirun-users
  2. Nothing needed in the Subject line. Just send.
  3. You will receive a response from the list manager notifying you that the command has succeeded and you have been removed from the list.

The same procedure should be used to subscribe to the scirun-develop mailing list.



Please send bugs and feature requests to This email address is being protected from spambots. You need JavaScript enabled to view it.
You must be a member of the scirun-develop mailing list to send bugs. Please follow the SCIRun Mailing Lists instructions to subscribe:
  1. Compose an email to This email address is being protected from spambots. You need JavaScript enabled to view it. with the following in the body of message: subscribe scirun-develop
  2. Nothing needed in the Subject line. Just send.
  3. You will receive a response from the list manager requesting confirmation. Just send back a reply message to confirm your subscription (no added text needed).
  4. Finally, you will receive a welcome message confirming that you have been added to the mailing list.

Developers with SCI or SCI collaborator accounts can report bugs and request features through the tracker on the SCI GForge portal.




For general questions about SCIRun, please send an email to CIBC Technical Manager (Elizabeth Jurrus): This email address is being protected from spambots. You need JavaScript enabled to view it.