Hi, Neuro-

This is a confusing point, and a good one to be cautious about in both analysis and report results. Namely, there are multiple coordinate notations in neuroimaging, and the sign is not enough for any (x, y, z) coordinate location to specify "left" or "right" for x, etc.

There are 2 main coordinate conventions: RAI (DICOM) and LPI (often called "SPM" coordinates because they use that). In AFNI, by default, we use the RAI/DICOM convention, so that: negative x coords are to the R, negative y coords are to the A, and negative z coords are to the I; positive x coords are to the L, etc.

So, whenever you are specifying a coordinate value, you need to also provide which coord system you are using: RAI or LPI (or something else). In AFNI, typically if nothing else is specified, you are in RAI coords (unless you have set an env variable to be otherwise). This seems to address your issue at present.

Note that in reporting in a paper, it would be more clear/helpful to the reader to point to "(47R, 13P, 7S)" than to "(-47, 13, 7) in RAI coordinates".

Note also that other software might deal differently with coordinate systems and reporting (sigh), so it is always good to be explicit as possible.

--pt