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Try this: file=spm_get(inf,'*.img'); v=spm_vol(deblank(file(i,:)); dimz=v.dim(3); oddidx=1:2:dimz; evenidx=2:2:dimz; idx=[oddidx evenidx]; %if you scan even slices first please use idx=[evenidx oddidx]; for i=1:size(file,1); v=spm_vol(deblank(file(i,:)); dat=spm_read_vols(v); data(:,:,idx)=dat; v=spm_write_vol(v,data); end Good luck! Ze Mike Yassa wrote: > Dear SPM, > > I have a fMRI time series that was acquired using interleaved slice > timing (which I can easily resolve using slice timing correction), but > the slices are also spatially interleaved. It seems as if the scanner > reconstruction of the 3D image failed, resulting in an interleaved (odds > then evens) scan. I attached a sample volume to get an idea of what this > looks like. Is there a way within SPM or MRICro to reorder the slices in > space (rather than time), based on a specified slice order? > > Thanks > > Mike > > > -- > ______________________________________________________________________ > | Michael A. Yassa, B.A. | > > | ____ ______ __ | > | ( _ )( __ )( ) Division of Psychiatric Neuroimaging | > | ) __) )( )( )( Department of Psychiatry and Behavioral Sciences| > | (__) (__)(__)(__) The Johns Hopkins University School of Medicine | > | 600 North Wolfe Street, Phipps 322, Baltimore MD 21287 | > | Tel: 410-955-7861, Fax: 410-614-3676, E-mail: [log in to unmask] | > | Web: http://pni.med.jhu.edu | > |_____________________________________________________________________|