Dear fsl community,
While performing 2nd level feat (combining runs for a subject), I noticed that the mask overlap image looked really bad (only small parts of the brain appeared in yellow) in the reg summary log. Looking over the specific masks from the 1st level analysis (individual runs), I was able to identify the messed up run (example attached). What I am not able to figure out is why the mask will be altered that way, as the registration seemed to work. I am suspecting that the resampling of stats to standard space did not work, but I still don't know how to solve this mask problem so I can use the run.
Any help will be much appreciated.
Thank you!
Ekaterina
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