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Hello group
I am new to freesurfer. I have two problems. Please accept my apologies if
these queries are bit naïve!
Any help will be much appreciated. I am trying to autorecon1 a single image
obtained from Philips 3T as dicom output. I use MacOS X11 terminal.
1. I am not able to use mri_convert to change these images to .mgz or niftii
format. Is this because these files lack .dcm extension? For some reason all
these files don¹t have .dcm extension though my radiology colleagues
repeatedl assure me that they are dicoms!
2. I obtained some T1 MPRAGEs in img hdr format (no mat files came with
them) and I am trying to recon1 this subject. There is a problem with
talairach transforms (z 8) that needs manual correction. But when I try to
open the brainmask.mgz on tkmedit for visual inspection I get the following
msg
Couldn't read the anatomical volume.
Tkmedit couldn't read the volume you specified.
This could be because the image format wasn't recognized,
or it couldn't find the proper header,
or the file(s) were unreadable,
or it was the wrong size.
Nevertheless when I proceed to open the tkregister2 for manual correction, (
without surf orig), I see the moveable image 180* flipped compared to the
target image in sagittal view. Could this be due to some error in conversion
of dcms? Or is this due to acquisition differences? Please help.
Many thanks in advance
Lena
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