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Take a look at the plots of estimated movement parameters from the realignment (these should be saved as a PostScript file somewhere). If there seems to be anything unusual in the plots, I'd suggest taking a closer look at the original images that correspond with the strange motion. Best regards, -John On 30 July 2014 18:49, Mahiko Konishi <[log in to unmask]> wrote: > Hello everyone, > > during preprocessing of same data I'm getting this strange problem (shown > in attachment), for which a part of the posterior brain gets completely cut > off. > I have 20 subjects and 2 runs for each subject, and this has only happened > for both runs of one subject, and for just one run of another subject. > > The preprocessing steps that I'm using are: > > - slice timing > - realign: estimate > - coregister: estimate > - segment > - normalise: write > - smooth > > and this problem seems to happen somewhere after slice timing. I manually > set the origin for T1s and functional runs so that's not the problem. > > Anybody knows what's going on? > > Thank you, > > Mahiko > >