Hi Michael
we have seen that occasionally, but that looks like a pretty bad example.
If you upload the subject I'll take a look. We have some unreleased tools
that can help with this (a relatively small manual intervention).
cheers
Bruce
On Mon, 23 Jul 2012, Murray, Michael wrote:
Hello,
In several of our subjects, we?ve noticed on the aseg that the hippocampus
extends into the fusiform gyrus.
I?ve attached an image showing this in the left hippocampus. Looking at the
wm.mgz volume, there seem to be
wm voxels in that region that shouldn?t be there (image attached). Could these
be what are causing the
incorrect segmentation (in which case the voxels can just be removed from
wm.mgz)? If not, do you have any
other ideas as to how to fix this problem? Otherwise, it seems as though the
aseg would have to be edited,
which would be a large and tedious edit to make in our very large set of
subjects.
This is particularly a problem because we are interested in the subfields, and
the issue carries over when
that processing is performed. In the same subject as discussed above, the CA1
subfield of the left
hippocampus also overextends into the fusiform gyrus (image attached). Since we
are primarily interested in
using the total subfield volume (rather than the aseg volume), it would also
work if we could just
specifically edit whatever the input to the subfield stream is. Would this just
be aseg, or are there other
volumes that would need to be edited before running the subfields flag? That
may be a question for Koen, but
any advice that anyone could offer would be very helpful.
Thank you,
Michael Murray
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