common ants-based approaches to labeling the brain

[satra]

for labeling structures in the brain:

1. joint fusion labeling (e.g., with mindboggle atlases)
2. template/label unwarping using antsCorticalThickness outputs (e.g., with mindboggle template +jointfusion atlas)

are there other methods that you have commonly used?

[gdevenyi]

https://github.com/cobralab/MAGetBrain - Driven by ANTS underneath, but uses a bunch of minc tools as well https://github.com/cobralab/antsRegistration-MAGet - Rewritten version driven exclusively by ANTs tools

[satra]

thanks @gdevenyi

we are trying to create a pipeline that's agnostic to datasets.

[gdevenyi]

Yup @satra, the rewritten version is input agnostic. Though you can't currently mix types. Its integrated into openneuro already