I separated my B0s from my diffusion weighted images in order to make a mean_B0 file. Then, I denoised & degibbed just the diffusion weighted images but not the B0s. Now, I need to do eddy correction on a single file containing my B0s and my diffusion weighted images. I have two questions, below. Any advice appreciated!
should I have run the denoising & degibbing on a single file containing my B0s and my diffusion weighted images?
is there a method for merging the B0s back with the denoised/degibbed diffusion images? The dirmerge command seems to be for merging directories rather than image files…