Nick Tustison

``antsCorticalThickness`` was developed in the context of human data and it might not generalize cleanly to other species. Given your application, you'll probably need to decompose the pipeline into its...

This would require significant changes to the ITK image metrics. As they are currently written, the masks dictate which voxels are used for computation---a binary proposition, hence the hard masks...

Have you looked at the `-g` option of `antsRegistration`? Granted, it's something that I've never used at scale but it should work for what you want, from what I remember.

It's not a registration error in the sense that what you're asking for violates the diffeomorphic assumptions of SyN, in particular, but the smooth mapping correspondence assumption generally of all...

> Using larger-than-usually-sensible gradient step size for the SyN step can allow for strong warping to improve this. Reducing the SyN regularisation can also help here It's not that the...

Also, I did a bit of work recently with mapping between AllenCCFv3 and light sheet data and other modalities. The first involved the development of [the DevCCF](https://www.nature.com/articles/s41467-024-53254-w) and the second...

If you have labels, I would focus on label-specific strategies such as those encapsulated in [ants.label_image_registration](https://github.com/ANTsX/ANTsPy/blob/master/ants/registration/registration.py#L1251-L1262) with [example usage](https://gist.github.com/ntustison/12a656a5fc2f6f9c4494c88dc09c5621#label-image-registration) available in our tutorial. You can then initialize a subsequent registration...

Interestingly, and coincidentally, we're working on this exact question in the context of some relatively recent ANTsX publications such as this [one](https://www.nature.com/articles/s41598-024-59440-6). We hope to have put something together within...