Welcome to hippogang/PICSL's ex vivo world at UPenn!

Automated deep learning segmentation of high-resolution 7 T ex vivo MRI for quantitative analysis of structure/pathology correlations in neurodegenerative disease

If you are using this tool for you research, please consider citing the work:

Khandelwal, P., Duong, M.T., Sadaghiani, S., Lim, S., Denning, A., Chung, E., Ravikumar, S.,
Arezoumandan, S., Peterson, C., Bedard, M. and Capp, N., 2023.
Automated deep learning segmentation of high-resolution 7 T ex vivo MRI for quantitative analysis
of structure-pathology correlations in neurodegenerative diseases. arXiv preprint arXiv:2303.12237.

Main paper

• https://arxiv.org/abs/2303.12237

Previous pilot studies

• https://arxiv.org/abs/2110.07711

• https://alz-journals.onlinelibrary.wiley.com/doi/full/10.1002/alz.062628

• https://alz-journals.onlinelibrary.wiley.com/doi/full/10.1002/alz.065737

Utilities

• flash_to_t2w_ACPC.md : convert the FLASH space voxel coordinates to T2w image

• exvivo-segm-demo-docker.md : docker container and get going with parcellating ex vivo 7Tesla

Video teaser (click below)