Re: [Freesurfer] painting polar angle retinotopy with abblocked design

The easiest thing to do is just mask the polar with the sig, something like:

mri_mask -T 2 -abs polar.nii sig.nii polar.sig2masked.nii

In this case, it will mask the polar using p < .01 (sig=2)

doug

Natalia Zaretskaya wrote:

Hi all, hi Doug,

I am analysing polar angle retinotopy with abblocked design, but can not figure out how to paint the output of sfa-sess correctly, so that I see something reasonable. I know that my analysis generally worked fine, because when I can view the phase.nii overlay, and it looks quite polar. It's just that it is not thresholded. I would really appreciate a hint!

Best regards, Natalia

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