: Re: [Freesurfer] Custom Segmentation of the Cortex usable with
mri_compute_volume_fractions
Do you mean you want to separate the volume fractions between two
adjacent segmentations rather than just all of cortex?
On 9/10/19 10:04 AM, Pfannmoeller, Joerg Peter wrote:
> Hello,
>
> I woul
Hello,
I would like to generate a custom segmentation of the cortex. That segmentation
should be restricted to a certain labeled region (e.g. a Brodmann Area). If
possible I would also like to restrict the region to the lower half or upper
half of the cortex. Let's call these new segmentations
Hello,
as far as I can see FS-FAST uses the 0th frame as the reference frame in the
computation of the motion parameters using the function . However, in the
visualization of the translations the motion parameters seem to use the middle
frame as the reference point. Is this the case? What is th
Hello,
is there a tool to extract the translations and rotations from an affine
transform matrix (register.dof6.dat)?
Best Joerg
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Hello,
I have used bbr to register all EPI volumes in my time series to the brains of
my participants. The fMRI time series at each vertex was determined based on
this registration. I would like to use motion regressors in the GLM analysis.
Is it appropriate to extract the motion parameters fro
] mri_compute_volume_fractions input volume
Hi Joerg
can you give us more information than that? Why do you say it is not
possible? It should be
cheers
Bruce
On Mon, 10 Jun 2019, Pfannmoeller, Joerg Peter wrote:
> Hello,
>
> I always used mri_compute_volume_fractions to compute the volume fractions
&
Hello,
I always used mri_compute_volume_fractions to compute the volume fractions in
my GE-EPI images (percentage of gm,wm, and csf in each voxel). That does not
seem to be possible anymore. I can still define a registration matrix and an
outstem but no input execpt of the standard FreeSurfer a
: flirt in bbr Matlab Execution
Don't use --best anymore, it is depricated. There should be no need to specify
an initialization (unless it is to initialize it with the header geometry).
Under the hood, it will use mri_coreg (a shameless copy of spmreg).
On 4/24/2019 7:07 PM, Pfannmoeller,
Hello,
I have a problem with bbregister and the option --init-best. In the current dev
version of freesurfer 6 the processing stops with the error message:
terminate called after throwing an instance of 'NEWMAT::SingularException'
Abort (core dumped)
ERROR: flirt
if I run bbr using Matlab and t
Dear all,
in fMRI analyses the translation of the the brains center and the rotation of
the associated coordinate system are determined. Did anybody of you ever write
a tool to determine the corresponding motion of the cortical surfaces? What I
mean is the total shift due to translation and ro
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