External Email - Use Caution
Hi FS experts,
I am attempting to extract signal intensity from the middle of the cortex,
using mri_vol2surf. With said surface, I would like to extract the mode
(and other histogram measures) from each of the 34 parcellations of the DK
atlas. I realize this needs to be done in matlab, and hence the difficulty.
Would I need to first convert the segmentation volume (such as
lh.aparc.annot ) into ".mgh" format, and use it with the output of
mri_vol2surf which would be in ".mgh" surface format. Since I am a complete
beginner to matlab exemplary code would be very helpful.
Thank you,
Yash
On Wed, Mar 14, 2018 at 6:26 PM, Douglas N. Greve <dgr...@mgh.harvard.edu>
wrote:
> No, sorry. You can do it easily enough in matlab, eg
>
> seg = MRIread('seg.mgz');
>
> input = MRIread('input.mgz');
>
> ind = find(seg.vol == SegNo);
>
> segmode = mode(input.vol(ind));
>
> [h x] = hist(input.vol(ind),100);
>
>
>
> On 03/13/2018 07:58 PM, Yash Patel wrote:
> > Any updates or ideas in extracting histogram data from mri_segstats?
> >
> > On Sun, Mar 11, 2018 at 1:16 PM Yash Patel
> > <ypa...@research.baycrest.org <mailto:ypa...@research.baycrest.org>>
> > wrote:
> >
> > Dear all,
> >
> > I am using mri_segstats to obtain intensity values from each of
> > the 34 cortical parcellations in the Desikan-Killiany Atlas; this
> > provides metrics such as mean, min, max, range, and standard
> > deviation.
> > Is there a way to extract information such as the *mode*, or
> > information to create a histogram for each of the particular regions?
> >
> > Thank you,
> > Yash
> >
> >
> >
> > _______________________________________________
> > 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
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.
