Dear DougI'm looking for making the interhemispheric registration procedure of FS, I was just gertting familiar with it by reading the:http://surfer.nmr.mgh.harvard.edu/fswiki/XhemiI found that in the step "# Correct for MC" say that this need a new version of mri_glmfit-sim, is this version someho
The Institute for Stroke and Dementia Research (ISD) is looking for a
Research Fellow/Postdoc:
Functional MRI & EEG Neuroimaging in Dementia
RESEARCH FOCUS and RESPONSIBILITIES:
The research fellow/postdoc will work on multimodal imaging of human brain
changes in early stages of Alzheimer's disea
I am Bharti, a M.Tech./Ph.D student at School of Computer & Systems
Sciences, Jawaharlal Nehru University, New Delhi, India. My area of
interest is pattern recognition and image processing. In one of my research
work, i used freely available freesurfer software to find cortical
thickness using reco
yes, each brain has a different number, sufficient to get about 1mm
isotropic resolution. You can use our spherical averaging to map them to
a common coordinate system with the same # of vertices if you want (I
think mri_surf2surf will do this)
cheers
Bruce
On Wed, 21 Nov 2012, Bharti Rana wro
Dear Donald McLaren
Thank you for your reply! I make the contrast according to your method is
following，but I want to make interaction between factor 1 (A,B)and factor
2(C,D,E), gender (M,F) and one continuous variable (age) as covariates, the
following contrast:
2 -2 0 -2 2 0 2 -2 0 -2 2 0 0
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
Hi Alessia - I'm not sure what you're referring to as "the dti mask". Can
you give me the file name of the image that you're displaying in the
screehshot? It does look like noise.
Thanks,
a.y
On Wed, 21 Nov 2012, Alessia Sarica wrote:
Dear Freesurfer Users,I'm a Ph.D. Student and I'm worki
On 11/21/2012 05:48 AM, Gabriel Gonzalez Escamilla wrote:
> Dear Doug
>
> I'm looking for making the interhemispheric registration procedure of
> FS, I was just gertting familiar with it by reading the:
> http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi
> I found that in the step "# Correct for MC
Hi Charles, sorry, it is not possible.
doug
On 11/21/2012 10:51 AM, charles laidi wrote:
> 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
> struct
Dear Freesurfer,I'm trying to convert come labels from the aseg.mgz into nifti volumesI'm using: mri_extract_label aseg.mgz # and aseglabel#.nii where the # is the label as appears on the freesurferColoLUT.txtand it seems to work perfectly, but the number of voxels does not match with the number of
Hi Alessia - So it's the FA map. Yes, this doesn't look like a correct FA
map, there's no contrast between the white matter and everything else. The
calculation of the FA has nothing to do with the freesurfer or tracula
algorithms. It just uses your DWI data set, the gradient directions and
t
Would this new tool also be able to provide a "better" delineation of both pial
surface and inner table of the skull
(assuming T2 and not FLAIR i.e. hyperintense CSF)) and thus provide the
possibility of computing extra-ventricular
CSF and thus cerebral atrophy?
Some of us would like that I'm sur
Hi Longchuan, I'm still not sure I understand what you are trying to do
ultimately. Do you just want a binary map of the surface in the DTI
space so that you can use each cortex voxel as a seed? Or do you want to
use one of the surface-based ROIs as the seed? This should be possible
without re
Hi Bo, I don't understand the contrast you are trying to make. Are you
really trying to compute the interaction between four variables (factor
1, factor 2, gender, and age)?
doug
On 11/21/2012 10:49 AM, xiangbo_2010 wrote:
> Dear Donald McLaren
> Thank you for your reply! I make the contrast acc
Hi Gabriel, this is normal. The volumes listed with aseg.stats have been
corrected for partial volume, so it is not as simple as counting up all
the voxels.
doug
On 11/21/2012 12:36 PM, Gabriel Gonzalez Escamilla wrote:
> Dear Freesurfer,
>
> I'm trying to convert come labels from the aseg.mgz i
Hi Tom, it is really necessary to use BRIKs these days? AFNI has
supported nifti for years. While it is possible for me to track this
down and fix it, it would take me a while (time I'd rather spend doing
something else:).
doug
ps. On the other hand, since you are probably the only one using BIR
No, I want to compute the interaction between factor 1 and factor 2 ,
gender and age as covariates. thanks
Bo Xiang
在 2012-11-22 04:22:06，"Douglas N Greve" 写道：
>Hi Bo, I don't understand the contrast you are trying to make. Are you
>really trying to compute the interaction between four variable
Hi, Doug
Thank you for following up the issue. I think that I have solved the problem.
What I wanted was to derive a binary map of the surface in the DTI space so
that each cortex voxel can be used as a seed.
Thank you very much for the help!
Longchuan
Fr
No, sorry, the whole brain context is critical for us
Bruce
On Nov 21, 2012, at 10:51 AM, charles laidi wrote:
> 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 segmentatio
Please explain what are the columns represent.
Best Regards, Donald McLaren
=
D.G. McLaren, Ph.D.
Research Fellow, Department of Neurology, Massachusetts General Hospital and
Harvard Medical School
Postdoctoral Research Fellow, GRECC, Bedford VA
Website: http://www.martinos.org/~mc
Yes, although we've only done the pial part so far
Bruce
On Nov 21, 2012, at 3:06 PM, Roderick McColl
wrote:
> Would this new tool also be able to provide a "better" delineation of both
> pial surface and inner table of the skull
> (assuming T2 and not FLAIR i.e. hyperintense CSF)) and thus
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