Apply fmriprep normalization transform to bring other data to MNI

Hello - I was wondering if there were any suggestions for applying the normalization transform from fmriprep to data that has not run through the pipeline. Specifically, I have a dataset with structural and functional data run through fMRIprep and some QSM images that have not been. Would it be possible to register these QSM images to the structural and then apply the transform matrix to get these to MNI? Any thoughts would be great
Thank you