Steve,
Having looked at the easythresh code, the zstat image is never actually
masked by the brain mask image. Is this an oversight?
David
On 11/26/02 9:53 AM, "Stephen Smith" <[log in to unmask]> wrote:
> Hi - sorry, it's a very simple script (type more
> /usr/local/fsl/bin/easythresh) mentioned in passing at
>
> http://www.fmrib.ox.ac.uk/fsl/feat5/programs.html
>
> just type easythresh to get the usage.
>
> Thanks, Steve.
>
>
>
> On Tue, 26 Nov 2002, David Glahn wrote:
>
>> Great, where could I find a discussion of easythresh, as it is not listed
>> among the avwutils page?
>>
>>
>> On 11/26/02 9:24 AM, "Stephen Smith" <[log in to unmask]> wrote:
>>
>>> Hi - are you wanting to do this inside FEAT (using the "pre-threshold
>>> masking" option) or thresholding from the command-line using "easythresh"?
>>> In the former case everything is taken care of for you - in the latter
>>> case, if you put in the corrected (reduced) mask, then again it will be
>>> taken care of for you.
>>>
>>> Regards, Steve.
>>>
>>> On Tue, 26 Nov 2002, David Glahn wrote:
>>>
>>>> Hello Everyone,
>>>>
>>>> I would like to use the cluster utility to threshold a tstat image that has
>>>> been masked to only include a potion of the total image. Other than
>>>> changing the volume option to reflect only the area included in the mask,
>>>> what considerations should be taken?
>>>>
>>>> Best,
>>>>
>>>> David
>>>>
>>>> ________________________
>>>> David Glahn, Ph.D.
>>>> Department of Psychiatry and Research Imaging Center
>>>> University of Texas, Health Science Center, San Antonio
>>>> Voice (210) 567-5508
>>>> Fax (210) 567-1291
>>>>
>>>
>>> Stephen M. Smith
>>> Head of Image Analysis, FMRIB
>>>
>>> Oxford University Centre for Functional MRI of the Brain
>>> John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
>>> +44 (0) 1865 222726 (fax 222717)
>>>
>>> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
>>>
>>
>>
>> ________________________
>> David Glahn, Ph.D.
>> Department of Psychiatry and Research Imaging Center
>> University of Texas, Health Science Center, San Antonio
>> Voice (210) 567-5508
>> Fax (210) 567-1291
>>
>
> Stephen M. Smith
> Head of Image Analysis, FMRIB
>
> Oxford University Centre for Functional MRI of the Brain
> John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
> +44 (0) 1865 222726 (fax 222717)
>
> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
>
________________________
David Glahn, Ph.D.
Department of Psychiatry and Research Imaging Center
University of Texas, Health Science Center, San Antonio
Voice (210) 567-5508
Fax (210) 567-1291
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