Hi Navena,
I am the wrong person to answer questions about the WM lesion stream. I think the one that is available in FreeSurfer is only based on T1 images, but a prototype of a better stream exists, that can incorporate different modalities.
Best, Martin
P.S. Changed the subject, to reflect that this is not a longitudinal question any more.
On 05/17/2016 12:37 PM, Navena Rebecca Lingum wrote:
Dear Martin,
Thank you kindly for your prompt response.
I am actually having difficulties with the delineation of White Matter Hyperintensities at a single time point. I apologize if my question is redundant and perhaps an answer to it is already mentioned elsewhere.
As it stands, I am finding it difficult to understand the exact “pipeline” of commands necessary to perform this segmentation and accurate delineation of WMH. I have ran the recon -all command on my T1w images, but I suspect a proper segmentation
of WMH would require a T2w Flair (which I have). How do I go about combining the preprocessing data produced by FreeSurfer with my T2w images to produce a WMH mask/volume/stats?
Any help on the matter is much appreciated!
Kindly,
Navena Lingum
Hi
Navena,
There
is currently no dedicated stream for longitudinal WM abnormalities (in the sense of joint estimation and modeling). You can, however, make use of the longitudinal stream and it's increase reliability - e.g it is working in the same space across time, which
should help get more reliable estimates.
Best,
Martin
On 05/16/2016 01:47 PM, Navena Rebecca Lingum wrote:
Dear FreeSurfer experts,
My colleagues and I would like to use FreeSurfer to perform a longitudinal analysis of white matter hyperintensities. Is there an additional add-on for the software to perform this analysis or can this
analysis be performed using the recon-all command?
Navena Lingum
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--
Martin Reuter, PhD
Assistant Professor of Radiology, Harvard Medical School
Assistant Professor of Neurology, Harvard Medical School
A.A.Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Research Affiliate, CSAIL, MIT
Phone: +1-617-724-5652
Web : http://reuter.mit.edu