Alternately, you Can use the function spm_mask to apply a mask to a t-map, and use an external viewer such as MRIcron to view your t-maps overlaid on an anatomical image.
Colin Hawco, PhD
Neuranalysis Consulting
Neuroimaging analysis and consultation
www.neuranalysis.com
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-----Original Message-----
From: SPM (Statistical Parametric Mapping) [mailto:[log in to unmask]] On Behalf Of Marko Wilke
Sent: December-02-16 2:02 AM
To: [log in to unmask]
Subject: Re: [SPM] SPM threshold while masking question
Rachel,
if you only look at the results, you may not see all voxels as some thresholding is done beforehand. You may want to look at the mask.img image in your stats folder to see which voxels were included in the first place. To mend this, you would have to play with the masking options in the statistical setup.
Cheers
Marko
Lepage, Rachel wrote:
> Hello all,
>
> I am trying to figure out how to view all active voxels within a mask
> (at p=1.0). When viewing t-test results, I am placing a mask on and
> setting the p-value as p = 1.0; therefore, all voxels within the mask
> should appear. However, only small clusters within the mask are
> showing voxel activation in the SPM output, even at p = 1.0. Would
> anyone know a way to view all voxel activation within a mask? (Using
> SPM8 currently)
>
> Thanks so much,
>
> Rachel
>
> *Rachel LePage, BS*
> /Research Associate,/ Psychiatry
>
> Western Psychiatric Institute and Clinic *[log in to unmask]
> <mailto:[log in to unmask]>*
>
> _cid:image001.png@01D1AF95.1368ACB0
>
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--
____________________________________________________
Prof. Dr. med. Marko Wilke
Facharzt für Kinder- und Jugendmedizin
Leiter, Experimentelle Pädiatrische Neurobildgebung
Universitäts-Kinderklinik
Abt. III (Neuropädiatrie)
Marko Wilke, MD, PhD
Pediatrician
Head, Experimental Pediatric Neuroimaging
University Children's Hospital
Dept. III (Pediatric Neurology)
Hoppe-Seyler-Str. 1
D - 72076 Tübingen, Germany
Tel. +49 7071 29-83416
Fax +49 7071 29-5473
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http://www.medizin.uni-tuebingen.de/kinder/epn/
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