Hi Michele

sorry, I don't think so. You need to run to the end. The good news is that when we get V6 out you will find it is substantially faster (if you have a multi-core machine)

cheers
Bruce
On Wed, 19 Nov 2014, Michele Cavallari wrote:

Hi Douglas, thanks for your reply. Is there a way to rerun only WM
segmentation with the threshold option, without going through the whole
time-consuming FS pipeline?Thank you!

On Tue, Nov 18, 2014 at 10:37 PM, Douglas Greve <greve@nmr.mgh.harvard.edu>
wrote:

      The unsegmented is all the WM that is further than 5mm from
      cortex. You can change the threshold so that it labels all of WM
      regardless of the distance. Other than that, I don't have much
      to suggest.
      doug

      On 11/18/14 6:13 PM, Michele Cavallari wrote:
      Hi, I am planning to perform some regional analysis of the
      frontal white matter as a whole, and asking here for
      suggestions/help. From the FS output wmparc.mgz I could
      select and merge the following labels to define my ROI

parsorbitalis [4019, 3019]
parstriangularis [4020, 3020]
lateralorbitofrontal [4012, 3012]
medialorbitofrontal [4014, 3014]
rostralmiddlefrontal [4027, 3027]
frontalpole [4032, 3032]
superiofrontal [4028, 3028]
caudalmiddlefrontal [4003, 3003]
paracentral [4017, 3017]
parsopercularis [4018, 3018]
postcentral [4022, 3022]
precentral [4024, 3024]
rostralantcingulate [4026, 3026]

However, a non-negligible portion of the subcortical frontal WM
is classified as unsegmented WM [5001, 5002] by FS. Would you
recommend any other FS output or template/atlas that I could use
for the purpose of measuring MRI signal in the frontal WM?

Thanks



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