Hi Mark,
Would you get a better registration if you used the mean volume of the functional
data (after motion correction) instead of a single volume (before motion correction)?
I'm trying to create a mean volume from my functional data, but I think I'm doing
something wrong:
mcflirt -in func -out func_mc
avwmaths func_mc -Tmean func_mc_mean
I'm averaging 127 volumes, so I expect that func_mc_mean should look better than
example_func, but that's not the case.
jack
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