Hi,
No problem - thanks for coming back to me.
Imaging was carried out with a GE Excite II 3-T scanner using an eight- channel phased array coil. We acquired coronal 3D-T1 weighted fast spoiled gradient echo (FSPGR) (0.94 × 0.94 × 1.1 mm) which is what I am plugging into Freesurfer.
There is actual data present - changing the windowing settings (brightness and contrast) at the front it is possible to make out both grey and white matter. It is at a low intensity compared with the rest of the brain. The data was acquired some time ago, and I am not sure what the source of drop off is. Thanks for your advice in advance.
Thanks.
M
On Mon, Jan 23, 2012 at 11:07 PM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Mahinda,
sorry, I meant to respond to this. It's hard to tell from the image - is there actually data in the frontal regions? What is the source of the drop-off? Is it a slab selective acquisition and is anterior/posterior the slab direction?
cheers Bruce
On Mon, 23 Jan 2012, Mahinda Yogarajah wrote:
Dear Experts,
Sorry if this is a repost, but I was not sure it got posted.
I have a few subjects that I want to salvage and use where there appears to be significant signal inhomogeniety in the last few frontal slices (see T1.mgz in attached figure 1). Despite the use of control points (placed with careful adjustments of windowing parameters), I still can't encompass all of the the gyri right at the front (see brainmask.mgz coronal slice in figure 2). I would really appreciate some advice on how to proceed from here. Is placing white matter voxels in wm.mgz a possible solution ? Or is there another solution ?
Thanks.
M
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