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Hi Mahshid, If the MB factor information is saved in the header file of your dicom images, then using the newer version of dcm2niix you will have a json file that stores some of the header information. You may feed that json file to the attached m-file (that I got from the FSL forum or wiki) and it creates a slspec.txt for you that you may use it for eddy. Hope this helps. Mahmoud On Mon, Dec 31, 2018 at 4:06 AM Mahshid Fouladivanda < [log in to unmask]> wrote: > > Dear Experts, > > I want to apply eddy correction including Correcting slice-to-volume > movement on dMRI data. So I need to create slspec.txt file, in order to use > the command: > > eddy --imain=data --mask=my_hifi_b0_brain_mask --acqp=acqparams.txt --index=index.txt --bvecs=bvecs --bvals=bvals --topup=my_topup_results --niter=8 --fwhm=10,8,4,2,0,0,0,0 --repol --out=eddy_corrected_data --mporder=6 --slspec=my_slspec.txt --s2v_niter=5 --s2v_lambda=1 --s2v_interp=trilinear > > But I don know how I can calculate the multiband (MB) factor? and what is > the number of slices? is it (MB factor) the value of the z dimension of > the images??? > > Regards, > Mahshid > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1