Hi Athanasia - TRACULA expects certains files named a certain way to be there at the end of each preprocessing step. These are described here:
https://surfer.nmr.mgh.harvard.edu/fswiki/trac-all#Outputdirectoriesandfiles If you are using pre-existing files, you have to make sure that they follow the same file/directory naming convention. You just run recon-all with the default settings. The aparc+aseg is created in one of the last steps of recon-all, so all the previous steps have to run as well. Hope this helps! a.y On Sat, 13 Aug 2016, Athanasia Metoki wrote: > Dear Freesurfer Developers, > > I am fairly new to image analysis and this is the first time I use > Freesurfer. > > I have some DTI data and I have already preprocessed them and ran bedpostX > using FSL. I ran probabilistic tractography on FSL as well to get the > connectivity between two distinct brain areas. > > I am also interested in getting the probability distribution for the > uncinate fasciculi so I am trying to use TRACULA. > My question is: Can I use TRCULA without doing preprocessing and dedpostX > again? If so, will I need to do the cortical parcelation and subcortical > segmentation with recon-all and get the aparc+aseg.mgz file in order to use > TRACULA? Which argument would I need to use when I run recon-all? > > Thank you! > > Athanasia Metoki > Psychology Doctoral Student - Brain and Cognitive Sciences Program > Cognitive Neuroscience Laboratory > Temple University > Department of Psychology > 1701 N 13th St. > Philadelphia, PA 19122 > Email: athanasia.met...@temple.edu > > ___________________________________________________________________________ > ____ > The contents of this email message and any attachments are intended solely > for the addressee(s) and may contain confidential and/or privileged > information and may be legally protected from disclosure. If you are not the > intended recipient of this message or their agent, or if this message has > been addressed to you in error, please immediately alert the sender by reply > email and then delete this message and any attachments. If you are not the > intended recipient, you are hereby notified that any use, dissemination, > copying, or storage of this message or its attachments is strictly > prohibited. > > _______________________________________________ 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.
