Hello,
I'm going back and running the jacobian analyses (using v4 recon-all) so
that I can look at distortion arising from the spherical registration.
Couple questions about what is going on "under the hood":
1) When using the -jacobian_white flag, the command executed is:
mris_jacobian ?h.white ?h.sphere.reg ?h.jacobian_white
Why the use of ?h.white rather than ?h.sphere as the "original surface"?
2) When using the -jacobian_dist0 flag (which appears to be analogous to
the old -jacobian flag in the recon-all from v3) the input surface used
is ?h.sphere.reg. If I understand correctly, this means that the
resulting ?h.jacobian_dist0 file reflects the ADDITIONAL distortion that
ensues when registering the already partially registered ?h.sphere.reg
to the average convexity of the target atlas with the distance
constraints turned offf. Is that concept of "additional" distortion the
correct way to think about the ?h.jacobian_dist0 data?
3) In terms of Eq (5) from Fischl et al 1999 ("High-Resolution
Intersubject Averaging..."):
J = J_p + A*J_a + D*J_d
Are BOTH constants A and D set to zero by the -dist0 flag in
mris_register (or is it just D that is set to zero)?
thanks,
Mike H.
--
Michael Harms, Ph.D.
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Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
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St. Louis, MO 63110 Email: [EMAIL PROTECTED]
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