I would like to ask a question related to the old thread posted in here, since I think I am running into a similar problem: Parcellation for MNI152NLin2009cAsym?
I ran preprocessing with fmriprep with the template MNI152NLin2009cAsym, and now I want to extract a ROI in fsl using an atlas on fsl’s standard template (MNI152_T1_2mm_brain). I realized that the coordinates of the two templates are not exactly the same. Because of that- when I try to examine the cope images of my subjects within the mask I created in fsl, I get the following error: “Error - mask size doesn’t match any of the images in the FEAT directory”. Note: I did the mask with the Harvard oxford atlas, which, to my understanding, is the one corresponding to fmriprep.
From the quoted thread, it seems like it was a problem in the past. However, now there is a way to download a suitable template to the one used in fmriprep, and then use it in fsl for the masking. If so, how exactly can I do that?
Thank you very much
- List item