Thanks Bruce for the prompt reply. Would you please explain how can I control mris_make_surfaces parameters, is this a part of recon-all process?
Best regards, Amirhossein Manzouri On Mon, Feb 17, 2014 at 3:35 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote: > Hi Amirhossein > > it's hard to tell without looking at the data, but you could try using the > expert options to change the allowable intensity ranges for the different > surfaces (e.g. if the white is too far out, don't allow mris_make_surfaces > to put the gray/white border at intensities that are that dark) > > cheers > Bruce > > > > On Mon, 17 Feb 2014, amirhossein manzouri wrote: > > Hi all, >> There is incorrect pial surface lines (red and yellow) in the right >> hemisphere of some of my subjects. The white matter and grey matter are >> very >> close regarding intensity and this can be seen in just a few slices and >> then >> it gets correct. I tried control points but regarding the low intensity >> they >> can be effective. I wonder if there is a way to correct this, or if they >> may >> affect the qdec analysis between group afterwards a lot.(since they are >> present in one or few slices and create thick GM in those slices!) >> >> Best regards, >> Amirhossein Manzouri >> >> >> >> >> >> > > 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. >
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