Hi there,

I'm trying to create ROI seeds on the basis of published coordinates. The problem I'm encountering is that the clusters are being created in a slightly different location that what I've specified.

My command was as follows:
3dundump \
-overwrite \
-prefix ${rootdir}/Seeds/subgACC_Connolly2013_all4.nii.gz \
-master ${rootdir}/Seeds/MNI152_T1_2mm_brain.nii.gz \
-dval 1 \
-fval 0 \
-xyz \
-srad 3 \
<(echo -e "-5, 34, -4 1
5, 34, -4 2
-5, 25, -10 3
5, 25, -10 4")

But, the center of mass of the seeds were placed in:
x y z
-6 -24 -10
4 -24 -10
-6 -34 -4
4 -34 -4

I'm not concerned about the sign difference on the y axis. That's because my files are RPI. I am concerned, however, that the x coordinates are different and the absolute value of the y coordinate is different.

I tried using a different master and found that the coordinates were also a little off and in a different direction. So, I think this is a master issue, but I want to stick with this master file because its what I registered my images to during preprocessing.

So, what exactly is going on and how can I address the issue?

Thanks,
Sarah