FSL FEAT first level analysis with fmriprep output

1

Hi all,

After finishing preprocessing with fmriprep, I’m trying to use FSL FEAT for first level analysis, and get weird results in the stats folder under the .feat folder.

By “weird” I mean like this:

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– fsleyes view of tsat3.nii.gz

I am using the 24 Head motion, the first 6 acomcor, and the cosine confounds as “additional confound EV’s”, under the “Stats” tab.

Tried smoothing FWHM with 4, and 5 mm, similar results.

I am using the space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz as 4D input

I tried registering it to MNI152-2mm following the Mumford solution of using FEAT on fmriprep output (How to use FEAT while skipping registration - YouTube)

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Notice additional “weirdness” (roundness) of the design matrix:

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– Design matrix, FWHM 5mm

In contrast with no smoothing at all:

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Any clue what I’m missing?

I would appreciate your help with this, thank you.

Uri

2

Hi, I would like to admit my error - I supposed that the func file MNI152NLin2009cAsym_desc-preproc_bold output is skull stripped. It isn’t, and requires skull stripping.

Again, newbie at this

Uri