Sorry for
missing your first email. Can you try adding --init-coreg to
your first bbregister command? Make sure to add it AFTER
--feat
External
Email - Use Caution
Hi
Experts,
I
posted earlier, but I believe my message has not been
posted due to the size of attachments so I’ve removed
them.
I
am using bbregister to align functional data to anatomical
space. I have been using the bbregister command with a
combination of different flags. However, there appears to
be varying levels of poor registration.
The
first command I used included flags for a whole brain ref
image and the --init-header flag. This leads to a
misalignment.
bbregister
--s PPT_1x --feat
/Data/PMA_retinoScans/PPT_1x/run1_pre_processed_functional.feat/
--int Data/PMA_retinoScans/PPT_1x/WholeEPI.nii.gz
--init-header
I
then removed the –int (whole brain reg image) flag. Again
the registration is massively misaligned.
bbregister
--s PPT_1x --feat
/Data/PMA_retinoScans/PPT_1x/run1_pre_processed_functional.feat
--init-header
I
then removed the –init-header flag. Again poor
registration.
Then
I removed both flags. This was the best registration, but
even this still looks a little bit off to me. You can see
that around the occipital lobe (reg3 attached), there
white matter isn't aligned very well.
bbregister
--s PPT_1x --feat
/Data/PPT_1x/run1_pre_processed_functional.feat/
Can
anyone give me any advice on this? I really am unsure as
to which why these flags failed to aid registration. I
have 3 other participants from a different dataset for
which the bbregister pointing to the feat directory and the
–init-header flag worked perfectly. Have I missed an
important step that could explain why no combination seems
to register the data correctly?
Any
advice would be great.
Thanks
in advance,
Mason
|
Mason
T Wells, MSc
PhD
student
School
of Optometry and Vision Sciences
&
Cardiff University Brain Research
Imaging Centre
(CUBRIC), School of Psychology
Cardiff
University
Cardiff
CF24
4HQ
UK
Email: WellsMT1@cardiff.ac.uk
Tel: 02920
879628
Web: Cardiff
University webpage
|
Mason
T Wells, MSc
Myfyriwr PhD
Yr Ysgol Optometreg a Gwyddorau’r Golwg
& Canolfan Ymchwil Delweddu’r
Ymennydd Prifysgol Caerdydd (CUBRIC), Yr Ysgol
Seicoleg
Prifysgol Caerdydd
Heol Maindy
Caerdydd
CF24
4HQ
DU
E-bost: WellsMT1@caerdydd.ac.uk
Ffôn: 02920
879628
|
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