After fmriprep, I want to process my results furthermore including smoothing, regressing out nuisance(mean white matter and CSF), and filtering.
I try to use “3dTproject” to regress out those nuisances and filter simultaneously.
I found mean white matter and CSF signals in fmriprep output results(xx_desc-confounds_regressors.tsv), I think they are extracted from BOLD images based on ROI (xx_label-WM_probseg.nii.gz and xx_label-CSF_probseg.nii.gz) of individual native space. Is it right?
Could I regress out them on results of standard space directly? Or Is it better for us to extract them in standard space based on a standard template such as SPM’s CSF template or MNI152NLin2009cAsym WM mask? These WM, CSF, and brain masks of different standard spaces could be obtained in OSF | TemplateFlow. But I think it’s difficult to find those masks of standard space if we process surface files (i.e., *.gii, *.dtseries.nii). Any suggestions?
Thanks a lot!