[Simnibs-discuss] Importing Brainsight Targets to SimNIBS - Target Seems Off

[Sliva, Danielle]

On Wed, Feb 8, 2023 at 1:43 PM Sean McBride <sean at rogue-research.com> wrote:

> On 8 Feb 2023, at 13:25, Sliva, Danielle wrote:
>
>
> https://simnibs.github.io/simnibs/build/html/documentation/neuronavigation/brainsight.html?highlight=brainsight
>
> I just tried this, and unfortunately the importer doesn't support
> DICOM-style coordinates.
>
> Hmmm, I've never actually used it, or looked at its code, so I may have my
> foot in my mouth here, but looking at the above link, I think the authors
> may have misunderstood what the coordinate systems Brainsight exports mean.
> And/or I'm misunderstanding the coordinate systems SimNIBS uses. :)
>
> What Brainsight calls "World" is not necessarily LPS. The origin is not
> even necessarily in a corner of the volume. Each dataset defines its own
> world coordinates.
>
> What Brainsight calls "Brainsight" is always what SimNIBS calls LPS though
> (origin at RAI).
>
> So perhaps the correct thing to do is:
>
>    - From BS, export in "Brainsight" coordinates
>    - hand edit the resulting file to change the coordinate system name
>    near the top of the file from "Brainsight" to "World"
>    - import into SimNIBS (where is seems to be assuming that "World"
>    means LPS)
>
>
That works to import! I'll run a simulation and let you know how the target
position looks.


>
>
> I'd be curious to know if that works.
>
> I'll find the time to read through the SimNIBS Brainsight import/export
> code too....
>
> Sean
>

Thanks,
Danielle

-- 
Danielle D. Sliva
PhD Candidate, Jones Lab
Dept. of Neuroscience
Brown University
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