Hi Tracy,
if you mean how the method works internally:
the input image is registered to it's left right flipped version and
mapped into the midspace. this makes the image upright and straight (see
HBM abstract
*Robust and Accurate Contralateral Registration for Pose Normalization
and Tumor Segmentation*. M.Reuter, H.D.Rosas, B.Fischl. /Human Brain
Mapping 2012, Beijing
<http://www.humanbrainmapping.org/i4a/pages/index.cfm?pageid=3458>./
http://reuter.mit.edu/blue/papers/reuter-hbm12-tumor/reuter-hbm12-tumor.pdf
That new image is then taken as the base. The reasoning behind this is:
- the base image gets interpolated similarly to a regular base (with N>1
time points)
- all other steps are identical to the longitudinal workflow (surfaces
on the base to initialize the longitudinal time point).
The original publication for the longitudinal pipeline is this
*Within-Subject Template Estimation for Unbiased Longitudinal Image
Analysis*. M.Reuter, N.J.Schmansky, H.D.Rosas, B.Fischl. /NeuroImage
61(4):1402-1418, 2012/.
but does not describe the single time point situation, which is
discussed in:
*Statistical Analysis of Longitudinal Neuroimage Data with Linear Mixed
Effects Models*. J.L.Bernal-Rusiel, D.N.Greve, M.Reuter et al.
/NeuroImage 66:249-260, 2012/.
Best, Martin
On 10/23/2014 12:17 AM, Martin Reuter wrote:
Hi Tracy,
When you call recon-all -base simply pass only the single time point -tp.
Best Martin
Sent via my smartphone, please excuse brevity.
-------- Original message --------
From: Tracy Melzer
Date:10/22/2014 10:59 PM (GMT-05:00)
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] longitudinal base template creation with one
timepoint
Dear FreeSurfer Experts,
I am interested in how the longitudinal stream creates a base template
with only a single image. Could someone please explain how or point me
to a reference as to how this is accomplished?
Thank you,
Tracy Melzer
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--
Dr. Martin Reuter
Instructor in Neurology
Harvard Medical School
Assistant in Neuroscience
Dept. of Radiology, Massachusetts General Hospital
Dept. of Neurology, Massachusetts General Hospital
Research Affiliate
Computer Science and Artificial Intelligence Lab,
Dept. of Electrical Engineering and Computer Science,
Massachusetts Institute of Technology
A.A.Martinos Center for Biomedical Imaging
149 Thirteenth Street, Suite 2301
Charlestown, MA 02129
Phone: +1-617-724-5652
Email:
mreu...@nmr.mgh.harvard.edu
reu...@mit.edu
Web : http://reuter.mit.edu
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