Normalization for large ventricles

[mahsamalek]

Hi everyone

I am trying to do the atlas normalization for a case with very large ventricles. Do you have any recommendation about what normalization protocol works best for such cases? ANT (Avants 2008) didnt do good and I am using v1.6.5.1

Thanks,

[andreashorn]

Hi mahsamalek,

nailing very atrophied brains to MNI can also be a bit dangerous – it’s a typical bias-variance problem (using a normalization approach that has high variance can lead to getting ventricles to fit but curly/smeary overfitting of smaller regions).
So in any case you should definitely check your data (e.g. take a look at the STN specifically in case of STN DBS) if you use a high variance normalization scheme.
I can recommend the ANTs preset “Effective (high variance)” as a first try.
Prelim data suggests that lower variance schemes do a better job at normalizing the STN though. So be careful with that.
And yes you need to upgrade for that normalization scheme.

Best, Andy

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