This is the right way to do it, but it may be over kill. I doubt the
fMRI results are going to change much whether you use the anatomical
from first day only, the 2nd day only, or a combination of the two.
On 02/10/2016 01:25 PM, Martin Reuter wrote:
> Hi,
>
> you should co register your struc
I'm not sure what you are trying to do in the long run. If you have two
different scan days and you want to test for differences between them,
then analyze each day separately in FSFAST (no problem about the
different number of slices). Within a day, each run is separately
registered to the an
Hi,
you should co register your structural scans with robust-register or
robust-template (if you have more than 2). This can be done into the
midspace to make sure both time points are mapped to avoid processing bias.
You can then register the functional scans to their corresponding
structur
Dear. Freesurfer team.
Thanks so much your help and advice.
Based on the comments, I'm trying freesurfer version 5.3.0 instead of 4.5.0
now.
In our experiment, each participant is scanned twice on different days and
the functional scan's brain volume are different (some scans have 33 number
of s
In 4.5 I don't think there is a way to run it when different runs have
different number of slices. Version 5+ will handle it properly. If you
really want to use 4.5, then you'll have to put it in a different
functional subdir (FSD, eg, bold), and create a new analysis for it,
then combine them
Dear. Freesurfer team.
As another attempt, I run the motion correction without the argument
-targrun:
mc-sess -s $SUBJECT -df sessdirfile -fsd bold_retino
However, I get the same error message again.
Why is that?
Thanks so much for your effort and time.
I appreciate it a lot.
Best,
Ji Won
Dear. Freesurfer team.
I'd appreciate any advice from you.
When doing the motion correction, I'd like to align all EPI
data(bold_retino) to the first EPI of target run(bold_decode/003). However,
the number of slices for target run(33) and the number of slices(32) for
input run(bold_retino) are di
Dear. Freesurfer team.
Hi.
I'm using freesurfer 4.5 version.
While doing the motion correction, an error occurred.
the command I used:
mc-sess -s $SUBJECT -df sessdirfile -fsd bold_retino -targrun
$DATA_DIR/$SUBJECT/bold_decode/003
the error I have:
/home/jbang/Projects/replay/epi/replay01/bol
