Thank you Michael for this link ! However, it seems that we have to install very precise versions of FSL and Freesurfer.
Once we get *fsl-5.0.6* package ( http://fsl.fmrib.ox.ac.uk/fsldownloads/oldversions/), how to install this one and which wiki to follow ? Cheers, ------------------------------------- Matthieu Vanhoutte, MSc Research Engineer - Department of Neuroradiology Regional University Hospital, Lille, France 2014-09-19 16:35 GMT+02:00 Harms, Michael <mha...@wustl.edu>: > > Hi, > I suggest you start with the documentation that accompanies the recently > released HCP pipelines. > see > http://www.humanconnectome.org/documentation/HCP-pipelines/ > and the link therein to the pipelines on GitHub. > > cheers, > -MH > > -- > Michael Harms, Ph.D. > ----------------------------------------------------------- > Conte Center for the Neuroscience of Mental Disorders > Washington University School of Medicine > Department of Psychiatry, Box 8134 > 660 South Euclid Ave. Tel: 314-747-6173 > St. Louis, MO 63110 Email: mha...@wustl.edu > > From: Matthieu Vanhoutte <matthieuvanhou...@gmail.com> > Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Date: Friday, September 19, 2014 9:23 AM > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Subject: [Freesurfer] HCP pipelines: fMRIVolume --> correction of > gradient-nonlinearity-induced distortion > > Dear Freesurfer's experts, > > I'm trying to follow fMRI Volume pipeline from "The minimal preprocessing > pipelines for the Human Connectome Project" (NeuroImage, 2013) on HCP data. > > The first step has to be the correction of gradient-nonlinearity-induced > distortion. The correction is then done with a customized version of the > gradient_nonlin_unwarp package available in FreeSurfer (Jovicich et al., > 2006). > > I couldn't manage to find this package on internet, the only things I've > found is the freesurfer grad_unwarp command and a webpage ( > https://surfer.nmr.mgh.harvard.edu/fswiki/GradientUnwarping) with no > download link... > > Where can I find this package and how to use it ? > > Many thanks ! > > Best, > > ------------------------------------- > Matthieu Vanhoutte, MSc > Research Engineer - Department of Neuroradiology > Regional University Hospital, Lille, France > > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > >
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