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DCAN-Labs / BIBSnet

This BIDS App provides the utility of creating a nnU-Net anatomical MRI segmentation and mask with a infant brain trained model. It can easily be included in other processing pipelines and for circumventing JLF within Nibabies.
https://bibsnet.readthedocs.io/en/latest/
Apache License 2.0
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readme

BIBSnet

DOI

Please visit the BIBSNet webpage for comprehensive documentation (including background information, installation and usage instructions, etc) and the BIBSNet dockerhub Repository to download the container.

We introduce BIBSNet (Baby and Infant Brain Segmentation Neural Network), an open-source, community-driven deep learning model. Provided as a BIDS App container, BIBSNet leverages data augmentation and a large, manually annotated infant dataset to produce robust and generalizable brain segmentations. The model outputs native-space brain segmentations, brain masks, and sidecar JSON files as BIDS derivatives.

BIBSnet - Stages for MRI Processing