Hello Eugenio,

Thanks so much for the quick response. I'm happy to hear that you are working on including intracranial volume in SynthSeg+, and I look forward to using that. I'll keep an eye on the FreeSurfer development version page to see when this feature has been implemented.

re. whole brain volume, indeed we are considering to just sum up the individual volumes to get a total, though I'm just a bit wary of doing that, in case something is missing. Also, in my patient population both brain and ventricle volumes are changing, which is why I am especially interested in ICV as a more stable measure.

Thanks again,

Jason.

Dear Jason,

Thank you very much for the interest in our tools.

We understand that intracranial volume (ICV) is a crucial covariate in volumetric analysis and are working on incorporating it into SynthSeg (and SynthSeg+). The good news is that we have a prototype pretty much ready and it should be added to the development version of FreeSurfer pretty soon.

As for the whole brain volume: it should be straightforward for users to compute it theirselves, and then they’re free to included or disregards eg ventricles as they wish. But I’m open to being convinced of the opposite. Either way, it’s a trivial change to the code.

Cheers,

/Eugenio

Juan Eugenio Iglesias
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On May 2, 2022, at 04:37, jason.millward@mdc-berlin.de wrote:

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Hello!
I am using SynthSeg (SynthSeg+), and so far testing this on my own data is going well.
A question I have for the forum is whether it is possible to get additional measures, such as whole brain volume and total intracranial volume. Both of these (and others) are available from FreeSurfer, but do not seem to be included in the SynthSeg output. I see a discussion thread from a few months ago referring to SamSeg, but I would really prefer to get this from SynthSeg, if possible – it runs much faster, and we are already implementing it

These whole brain measures are very important to our work, since we are measuring relative changes in patients over time, and need to normalize the volumes. Is there any way to get this directly from SynthSeg+? Any help is appreciated!
Best regards,
Jason Millward.

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