the binaries will be in the upcoming 6.0 and we could give you a beta version pretty soon if you like. Rebecca (ccd) might have some documentation that you can use, but I'm not sure.
cheers Bruce On Mon, 27 Apr 2015, K. Wagstyl wrote: > Hi Bruce, > > Thanks for this. I did see this paper and would like to try the > correction method - is it included in a new release of freesurfer or is > it a separate script? > If it's separate, would it be possible to try it? > > Many thanks, > Konrad > > On 2015-04-27 13:43, Bruce Fischl wrote: >> Hi Konrad >> >> if you read Rebecca Shafee's recent paper: >> >> http://www.ncbi.nlm.nih.gov/pubmed/25449739 >> >> you can see what we do about this kind of thing. The stream is >> largely >> undocumented but you are welcome to try it out if you like. >> >> cheers >> Bruce >> On Mon, 27 Apr 2015, K. Wagstyl wrote: >> >>> Hi, >>> >>> Is there a way to address or account the effects of partial voluming >>> when sampling grey matter intensity (mri_vol2surf)? >>> >>> In particular, where there is cortical thinning, I'm also finding >>> intensity changes that could either be due to changes in the amount of >>> partial voluming or a change in the grey matter tissue contrast. Is >>> there any way to disambiguate the two? >>> >>> The commands I'm using are: >>> bbregister --s "$s" --mov "$s" --mov "$s"/mri/brainmask.mgz --reg >>> "$s"/mri/transforms/Identity.dat --init-fsl --t1 >>> >>> mri_vol2surf --src "$s"/mri/brainmask.mgz --out >>> "$s"/surf/"$h".T1_intensity.mgh --srcreg >>> "$s"/mri/transforms/Identity.dat --hemi "$h" --projfrac 0.2 >>> >>> Thanks, >>> >>> Konrad >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >>> >> _______________________________________________ >> 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. > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
