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I'm not sure the best way to approach this. What is it that you are trying to show? The total connectivity value from seeds_to_targets files will equal the waytotal that made it to that target, so waytotal normalization would be silly in this case. I am more familiar with making comparisons between hemispheres within subjects with the connectivity numbers. I know people have done things like tracking pathways across subjects and then measuring the FA in the pathway or other quantitative diffusion metrics. Peace, Matt. -----Original Message----- From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Natalia Francisca Sent: Tuesday, March 08, 2011 4:50 AM To: [log in to unmask] Subject: Re: [FSL] question regarding connectivity Hi Matt, Thank you for the reply, I see. If one wants to compare the connectivity from one seed mask to different targets between subjects, what would be a suggested "index" to compare between subjects? as far as discussed in the lists, the classification targets masks seem to be only comparable "with-in subject", am i understanding it correctly here? The fdt-path divided by waytotal would be possible for "between"subject comparison, but it seems to has no information of the information from the seed to different targets. Cheers Natalia