Hi Gabriel the contrast probably isn't changed, just the display. Tkmedit tries to compute good window level settings based on the image content, and after stripping there will be far less bright fat, so the brain will probably look brighter. Check the actual voxel values.
cheers Bruce On Mon, 9 Apr 2012, Gabriel Gonzalez Escamilla wrote: > Dear FreeSurfer experts > > I'm using the command "recon-all -skullstrip -clean-bm -gcut -subjid name" > to improve the skull stripping of my subjects, but after running this > command the contrast looks so changed (bright), is it normal? Does this > whitening somehow can change the later analyses? > > Regards, > Gabriel. > > _______________________________________________ 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.
