Hello again,
I do have the tstat image selected for thresholding. The activations appear
to be centered around the same general areas as afni shows, however they are
much more expansive, and for some reason survive when I type in a ridiculous
threshold of 20. Considering that the activations barely survive a
threshold of 2 in afni, and they did not survive the clustered thresholding
in the FEAT report at all, I don't quite know what could be causing that?
J
On 8/23/04 10:19 PM, "Tim Behrens" <[log in to unmask]> wrote:
> Hi there -
>
> I'm guessing here, but I think it's possible you're
> thresholding the wrong image. The threshold you type in is applied to
> whichever image you have selected in the bottom left hand corner of
> fslview. My guess is that you have selected the underlying structural
> image and not the functional overlay. If you swap the selection, and then
> apply the threshold to the overlay, it should threshold ok.
>
> Tim
>
>
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-
> Tim Behrens
> Centre for Functional MRI of the Brain
> The John Radcliffe Hospital
> Headley Way Oxford OX3 9DU
> Oxford University
> Work 01865 222782
> Mobile 07980 884537
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>
> On Mon, 23 Aug 2004, Jacquie H wrote:
>
>> Hello -
>> I'm new to fsl, and need a little help with a data-viewing inconsistency.
>> I ran an analysis, and by looking at the FEAT report, could see that
>> activations in my contrasts did
>> not survive the clustered threshold analysis. When I view the data in AFNI,
>> and threshold the
>> image at 1.522, there are some nice (small) clusters of activation that I
>> would like to use for an
>> ROI analysis.
>> Here's the problem: when I load the same .hdr file (it's a tstat image) into
>> fsl view and try to
>> threshold the image, there are enormous blobs of activation everywhere - the
>> whole brain is
>> almost red (even with ridiculously high thresholds).
>> I'm wondering if anyone has encountered this problem before and could give me
>> a little advice on
>> getting the fslview images to more closely resemble the AFNI ones...
>>
>> Thanks!
>> Jacquie
>>
>
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