Hi Dirk,
they are in the individual subject space.
cheers,
Bruce
On Mon, 30 Jun 2008, Dirk
Bernhardt-Walther wrote:
Hello
The -autorecon2 stage of recon-all generates the binary masks
[lr]h.ribbon.mgz. I am assuming that these files are in Talairach
space? How can I convert them back to th
Hello
The -autorecon2 stage of recon-all generates the binary masks
[lr]h.ribbon.mgz. I am assuming that these files are in Talairach
space? How can I convert them back to the individual subject's
coordinate space?
Thanks!
Dirk
--
=
Dirk Bernhardt-Walther, PhD
B
you needa space between the -i and the path. Also, did you mean to include
the .mgz in the subject name? The volumes that are created will have the
.mgz extension, but we don't usually name our subjects with .mgz
On Mon, 30 Jun 2008, Daniel H
Choi wrote:
Hi,
I am trying to change my dicom
Hi,
I am trying to change my dicom files to mgz format. I know recon-all can do
this, however after the mgz file is created, tkmedit will not display it. As
described in the freesurfer-wiki site, there are steps outlining 2
acquisition directories. What does this specifically refer to? I assumed
t
-- Forwarded message --
Date: Mon, 30 Jun 2008 16:23:54 +0100
From: Thomas Nichols <[EMAIL PROTECTED]>
To: jorge luis <[EMAIL PROTECTED]>
Cc: freesurfer@nmr.mgh.harvard.edu, Bruce Fischl <[EMAIL PROTECTED]>
Subject: Re: About cluster thresholding
Dear Jorge,
When using a permut
Hi Jorge,
I'll leave this for either Doug or Tom Nichols, who understand this much
better than me. I would guess that 5000 is not enough, but I could be
wrong.
cheers,
Bruce
On Mon, 30 Jun 2008, jorge luis wrote:
Thank you very much Bruce
I have another question:
I plan to use permutatio
Thank you very much Bruce
I have another question:
I plan to use permutation testing in order to correct for multiple comparisons.
Is it enough to perform 5000 iterations for an initial voxel_wise threshold of
0.005?
Is there also any heuristic to select this arbitrary initial threshold and
Hi Abel,
it's hard to say - it depends on the sequences and anatomy. Try running a
couple and see if you think they are better. There's no technical reason
you can't use the older ones with the new version, but the new ones might
be more accurate.
cheers,
Bruce
On
Mon, 30 Jun 2008, abel cru
Hello
I have read in some emails about the improvement of the subcortical
segmentation in the last FreeSurfer versions. I have 40 subjects processed with
the 4.01 version and my attention is focused in the thalamus. Has been
improvement the segmentation of this structure in the later FreeSurfer
