Hi, I would redo the processing for the Tracula processing as the FSL tools require your data to be in a certain orientation and ours don't so you might end up with some inconsistencies if you use the two packages together.
Lilla On Wed, 28 Mar 2012, Antonella Kis wrote: > > > Hi Anastasia, > > Many thanks for your reply and help. I was wondering that instead to redo all > the preprocessing and registration steps s mentioned on FSTutorial/Running > Tracula: > * Eddy-current correction > * Intra-subject registration (diffusion data to T1) > * Inter-subject registration (individual subject to a common space) > * Creation of cortical and white-matter masks from FreeSurfer recons > > I can use all this results from my DTI Data Analysis Preprocessing Stream as > mentioned on the FSTutorial/Diffusion, by running first the dt_recon (this is > performing an Eddy-current correction) and then I resampled structural data > in the Diffusion space > (aparc+aseg2diff.mgz, wm2diff.mgz), then I applyed the mask to the diffusion > data and removed the unwanted "noise", using the 'mri_mask' command to get > the masked fractional anisotropy volume (fa-masked.mgz), adc-masked.mgz and > then doing individual subject > registration on the CVA space and get resampled int CVS space > (fa-masked.ANAT+CVS-to-avg35.mgz) using the using mri_cvs_register. > > > I also have all the outputs mentioned under FSL's dtifit since I got them by > running dt_recon. > > So I wonder if is possible to perform a DTI probabilistic tractography using > TRACULA by starting only from the last two steps mentioned in trac-all -prep: > * Computing anatomical priors for WM pathways, Recontructing WM Pathways, > then visualizing the WM pathways, and then doing only statistics. > This is what I meant by my previous results. > > Thank you for your time and help. > > Antonella > > ___________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________________ > From: Anastasia Yendiki <ayend...@nmr.mgh.harvard.edu> > To: Antonella Kis <ator...@yahoo.com> > Cc: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu> > Sent: Wednesday, March 28, 2012 2:07 PM > Subject: Re: [Freesurfer] dt_recon and tractography > > > Trackvis does deterministic tractography, not probabilistic. > > Which previous results do you want to use and why? > > On Wed, 28 Mar 2012, Antonella Kis wrote: > > > Dear FS experts, > > > > I would like to know if for a Diffusion tensor imaging (DTI) tractography > > study > > with TRACULA I can use my previous results from FSTutorial/Diffusion more > > exactly my results after running dt_recon and registrations on the CVS > > space. > > If not can you please advise me if for a DTI probabilistic tractography > > using > > my previous results as mentioned above I can use TracVis. > > > > > > Thank you. > > Antonella > > > > > > > > > _______________________________________________ > 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. > > > > > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
