Introduction to FreeSurfer on the OSPool

Overview

FreeSurfer is a software package to analyze MRI scans of human brains. The OSG used to have a service called Fsurf, which is now discontinued. Instead we have community supported FreeSurfer container image and workflow. Please see:

• https://github.com/pegasus-isi/freesurfer-osg-workflow - scroll down to see the documentaion on this page.
• Container image: /cvmfs/singularity.opensciencegrid.org/opensciencegrid/osgvo-freesurfer:latest and defined at https://github.com/opensciencegrid/osgvo-freesurfer

Prerequisites

To use the FreeSurfer on OSG, you need:

• Your own FreeSurfer license file (see: https://surfer.nmr.mgh.harvard.edu/fswiki/DownloadAndInstall#License)
• A regular OSG Connect account.

Privacy and Confidentiality of Subjects

In order to protect the privacy of your participants’ scans, we request that you submit only defaced and fully deidentified scans for processing.

Getting Help

For assistance or questions, please email the OSG Research Facilitation team at support@osg-htc.org or visit the help desk and community forums.

Acknowledging the OSG Consortium

We gratefully request your acknowledgement of the OSG in publications benefiting from this service as described here.