Hi,
Good to read that you solved this problem. I do not see, where
easythresh is using a transformation, but I was wondering, if you did
with the flirt command the right transformation:
> >>flirt -interp nearestneighbour -in <file> -ref <file> -applyisoxfm 4
> >>-out
> >><file_4mm>
Here you use the input file as reference. It might be better to have the
4mm data as reference, and use with the initi option a transformation
matrix that gets the highres data into the lowres space. Otherwise it
could be, that the mask of your low space data does not match the
downsampled data.
wolf
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