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
