Hi Yash
try something like:
seg = MRIread('aparc+aseg.mgz');
norm = MRIread('norm.mgz');
ind = find(seg.vol == 1002);
segmode = mode(norm.vol(ind))
cheers
Bruce
On Wed, 22 Aug 2018, Yash Patel wrote:
External Email - Use Caution
Hi Dr.Greve,
I ran:
seg = MRIread('aparc+aseg.mgz');
input = MRIread('surface_pf05.mgh');
ind = find('aparc+aseg.mgz' == 1002); #where 1002 is a roi number
segmode = mode(input(ind));
This is where i run into an error: Index exceeds array bounds.
Is this due to ".mgz" as segmentation vol and input is ".mgh" ?
Thanks,
Yash
On Wed, Aug 22, 2018 at 11:30 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>
wrote:
Hi Yash
we already create the volumetric representations for you (e.g. the
aparc+aseg.mgz). You should be able to use it
to generate histograms of each parcel in 5-10 lines of matlab code
cheers
Bruce
On Wed, 22 Aug 2018, Yash Patel wrote:
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
>
>
>
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