Hi Vy
Thanks for your reply!
I think the first option you mentioned, selecting SPM's brainmask is the best option for me.
However, I am not sure which IMG I need to choose and in which module?
As I wrote before there are a few options in SPM8 to add a mask.
One, in the spatial preprocessing in the segmentation, second in the fMRI model specification module, in which it is possible to add an explicit mask and third in the results module (mask with image)
I still did not understand from your answer which one is the correct place to add a mask which will exclude voxels outside the brain. And which image should I use as the mask?
SPM creates a file called mask.img but it is created only later in the model estimation so I can't call it earlier.
Which image did you mean when you wrote: " SPM's brainmask"?
Also, you mentioned that if I wish to use the -inf threshold, I should convert this to a binarised image since the brain mask is smoothed, how do I do this?
Thanks for your help,
Abigail
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