[Freesurfer] Cerebellar parcellation

Dear Freesurfers, I would like to perform cerebellar parcellation on structural mri with freesurfer. I asked if this was possible 6 months ago (see message below, saying that this feature wasn't available for now). I checked on freesurfer wiki the release notes about Freesurfer version 5.2.0

[Freesurfer] Fwd: --sum option in mri_segstats

Dear Freesurfers, I have a problem using the mri_segstats function. I'm trying to get Intra cranial volumes (ICV) from images that I have previously segmented. As I have lots of images, I'm using this script : foreach filename (*_conv) mri_segstats --subject $(filename) --etiv-only --sum

[Freesurfer] How to create a figure for a scientific article

Dear Freesurfers, I have just performed cerebellar segmentation with freesurfer. I checked the segmentation was correct using freeview : freeview -v t1_xxx/mri/aseg.mgz:colormap=lut:opacity=0.2 I would like to create a figure for my article. However, I'm not able to find a way to highlight only

[Freesurfer] selection of a restricted structure, easy question ?

Dear Freesurfers, I already have some experiment in segmentation : I just used FSL to perform cerebellar segmentation. I wanted to know if it's possible to run segmentation on a restricted structure (i.e cerebellum) instead of performing segmentation on the whole brain. It ll be easier for me and

[Freesurfer] aseg.stats

result by the n+1 result Thanks very much for you help Sincerely yours, Charles Laidi ___ 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

[Freesurfer] Parcellation of cerebellum.

Dear freesurfer, I'm trying to perform parcellation on the cerebellum. After reading closely freesurfer wiki and the questions related to this topic on the mailing list, my understanding is that there is no way to perform fully automted cerebellar parcellation on structural mri with freesurfer.

[Freesurfer] Checking cerebellar segmentations

Dear freesurfers, I just finished cerebellar segmentation on almost 100 subjects. I have read the usual checking procedure that should be performed on freesurfer website. However I wasn't able to find if there is a specific checking workflow that can be performed when freesurfer is used for 100 /

[Freesurfer] QA tools outliers, use of -gen-asegLUT

, . +/- . as100351_conv Left-Cerebellum-White-Matter value 1.209679200 is an outlier (avg = . +/- .)... The value that appears to be an outliers doesn't match with the value that I found in Asegstats for Left-Cerebellum-White-Matter. Thanks a lot for your help, have a nice weekend. Charles Laidi

[Freesurfer] group analysis

Dear FreeSurfers, I would like to study the interaction between age and cortical thickness in patients and controls. My hypothesis is that there is an interaction and that cortical thickness is decreasing faster with age in patients than in controls. I have both Male and Female included in 6

Re: [Freesurfer] group analysis

to > create the design matrix yourself as this is outside of the FSGD > specification. > > > On 10/05/2016 09:22 AM, charles laidi wrote: > > Dear FreeSurfers, > > > > I would like to study the interaction between age and cortical > > thickness in patients and