Hi Shahin, I finally tracked it down. The problem is that in the
analysis you specified -native but after that you specified -per-run.
These two are incompatible, so it uses whatever is specified last. This
caused it to take the intersection of all the run masks. But the run
masks are not regi
what is your SUBJECTS_DIR ?
On 11/14/2014 11:22 AM, SHAHIN NASR wrote:
> Hi,
> For one of my subjects, I have noticed a misalignment between
> sig.nii and orig.mgz when I try to show the sig map using either
> tkmedit (as below):
>
> cd /autofs/cluster/tootell/pitcairn/1/shahin/V2_Ori/Analysi
Hi,
For one of my subjects, I have noticed a misalignment between sig.nii
and orig.mgz when I try to show the sig map using either tkmedit (as below):
cd /autofs/cluster/tootell/pitcairn/1/shahin/V2_Ori/Analysis
tkmedit-sess -s ../Subjects/auil2 -a OriExp_TR3_1p5mm_PR -c ANG_90_45
or tkmedit
Hi Rebecca, this is intentional. The whole brain is divided up into left
cortical hemi, right hemi, and subcortical structures. the MNI305 is
only supposed to handle the subcortical structures. If you want a brain
volume with cortical and subcortical, you can use vlrmerge to merge the
volume,
Hi experts,
When I'm pre-processing the 4D whole brain BOLD images using "preproc-sess
-sf -mni305 -fwhm 5 -fsd bold -per-run" , the results of registration from
BOLD images to the MNI305 template are always only a small part of the
original images. I tried to use another T1_152 template instea
Hi Rebecca, have you verified that the registration to anatomical space
is correct?
doug
On 07/02/2013 08:09 AM, Lijia Wang wrote:
> Hi experts,
>
> When I'm pre-processing the 4D whole brain BOLD images using
> "preproc-sess -sf -mni305 -fwhm 5 -fsd bold -per-run" , the results of
> registrat
Hi experts,
When I'm pre-processing the 4D whole brain BOLD images using "preproc-sess
-sf -mni305 -fwhm 5 -fsd bold -per-run" , the results of registration from
BOLD images to the MNI305 template are always only a small part of the
original images. I tried to use another T1_152 template instead
yes, don't know why it did not. Can you delete that dir and re-run?
Robert Levy wrote:
Hi Doug,
These are the commands that were used, or so I gather based on the
file dates. Shouldn't this have put them into a common
talairach-based space?
#kthakkar 1/16/06
#*ASD v. Normals volume analys
Hi Doug,
These are the commands that were used, or so I gather based on the file
dates. Shouldn't this have put them into a common talairach-based space?
#kthakkar 1/16/06
#*ASD v. Normals volume analysis*
intergroupavg-sess -analysis EMerror -contrast ASvfix -group1
BwGroupNormalsError5 -gr
how did you create BwGroupError5/bold/EMerror/tal-rfx/ASevfix/sig? It is
64x64x20, which is probably your native functional space.
Robert Levy wrote:
Hi,
I have 3 contrasts between conditions in a between group comparison on
the volume, and I'm using mri_volcluster to get information about t
Hi,
I have 3 contrasts between conditions in a between group comparison on
the volume, and I'm using mri_volcluster to get information about the
data. For some reason, while two of the contrasts (ASvfix and ASevASc
as shown below) are compatible with the register.dat file for these
contrasts
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