Hi William
If your images are acquired sagittally, this might be useful to you.
My structural images are acquired sagittally. What I have been doing is
converting from DICOM to FSL-nifti then applying the following command:
Fslswapdim input RL PA IS output
That seems to flip them to axial slicing. I'm hoping that this solves
the problem! It seems to work ok when I plug into FEAT :) Andreas I'd be
interested to know what you think?
Cheers
Reem
-----Original Message-----
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On
Behalf Of Andreas Bartsch
Sent: Sunday, September 12, 2010 2:07 AM
To: [log in to unmask]
Subject: [FSL] AW: [FSL] FEAT seems to flip Left and Right orientation
I have seen a MRIcron bug for sagittal acquisitions. May that be the
case?
Cheers-
Andreas
________________________________________
Von: FSL - FMRIB's Software Library [[log in to unmask]] im Auftrag von
William Sohn [[log in to unmask]]
Gesendet: Samstag, 11. September 2010 14:25
An: [log in to unmask]
Betreff: [FSL] FEAT seems to flip Left and Right orientation
Dear FSL community,
I have a problem in FSL where the brain image seems to flip randomly. I
know fsl displays images radiologically however for some reason
sometimes the images is flipped. For example when we perform left
finger tapping experiments activation appears in the left hemisphere of
the brain.
I was thinking it might be the way I convert the data to FSL *.nii.gz
format. The images that we acquire are *.hdr *.img files which I
convert to FSL compressed format using MRICRON. Maybe the raw data
lacks any orientation data so fsl seems to flip it randomly?
I was wondering if there is a way to lock the right and left hemipsheres
so that it doesn't flip. I used flsorient and it says the data is
neurological however i've run the data several times and sometimes the
image flips and sometimes it doesnt.
Thank you,
-William Sohn
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