Dear Michael,
the procedure you use looks perfectly ok to me. Realigning all sessions
means that all functional images are in register with the first image of
the first session. This image is also the reference in your
coregistration step - thus registering the anatomical image to the
functional time series. Therefore, you can apply the normalisation
parameters from segment to these images (of course assuming that all of
the steps above produced accurate results).
Volkmar
Dear SPMers,
I am unsure about a batch script that I have been using and just want to
make sure what
I am doing is correct.
I am preprocessing mutisession fMRI data of a block design.
(1) First, I am obtaining realign parameters ("Realign: Estimate") for
all sessions for a
subject.
(2) Then, I am coregistering the anatomical image (source image). As
Reference image, I
am entering my "Realign: Estimate: Realigned Images (Sess 1)" file via
"Dependency".
(3) Then, I am segmenting the subject's anatomical image.
(4) Then, I am normalizing ("Normalize: Write") all sessions using all
"Realign: Estimate:
Realigned Images (Sess 1, 2, ...)" as "Images to Write" and the "DEP
Segment: Norm
Params Subj->MNI" option as "Parameter File".
Therefore, for the coregistration step, I have used only Session and
probably just one
image out of that functional series to coregister with the subject's
anatomical image.
I am asking naively a few questions:
As I am apparently only coregistering one image of one session to my
anatomical image,
should I be concerned about deformations? Should I not consider several
sessions for the
coregistration to my anatomical image? Am I correct in the
interpretation that, at the
normalization step, the parameters from the normalization of the
segmentated
anatomical image are used to normalize my functional (Session) images?
These questions are basically to make sure I understand the process
correctly.
Thanks,
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