Hi Saad, Thank you for your quick reply. Cheers, Virendra ________________________________________ From: FSL - FMRIB's Software Library [[log in to unmask]] on behalf of Saad Jbabdi [[log in to unmask]] Sent: Monday, August 01, 2011 11:54 AM To: [log in to unmask] Subject: Re: [FSL] Extracting FA from fdt_paths from classification targets Hi - yes the only way to do that is to re-run tractography to each ROI separately. Sorry.. Saad. On 1 Aug 2011, at 17:13, Virendra R Mishra wrote: > Hello FSL Experts, > > We used probtrackx to generate a connectivity distribution from 1 ROI to multiple ROIs and have fdt_paths.nii.gz and seeds_to_target_{x}.nii.gz files as output files where "x" is the target ROI. We are interested in computing the FA along the tracts from the seed mask(sm) to target ROI(tROI) 1 , sm to tROI 2 until sm to ROI x. We understand that the fdt_paths file has the summed probability in each voxel and seeds_to_target_{x} file doesnot have the path information. Please correct me if I am wrong in my interpretation. Is there a way in FSL to extract only the paths from sm to tROI 1 and use this as a mask to compute FA along this tract? or the only way left is to track again from sm to each tROI1 which is quite demanding in time? > > Hoping for some insights. > > Thank you. > > Cheers, > > Virendra > -- Saad Jbabdi University of Oxford, FMRIB Centre JR Hospital, Headington, OX3 9DU, UK (+44)1865-222466 (fax 717) www.fmrib.ox.ac.uk/~saad ________________________________ UT Southwestern Medical Center The future of medicine, today.