Skeletonization of Tracer Injection Data
Resources for our Skeletonization and Summarization Framework
Datasets Available
Available Code
- Skeletonization Framework Link to Github
- Vectorization of Skeletonized Data Link to Github
- Registration Link to Github
- Summarization of Skeletonization Data Link to Github
- Visualization Tools & Utilities Link to Github
Data Samples
- WSI Data Link
- STP Data Link
- Tile Likelihood Original
Publications
- Banerjee, Samik, Lucas Magee, Dingkang Wang, Xu Li, Bing-Xing Huo, Jaikishan Jayakumar, Katherine Matho et al. “Semantic segmentation of microscopic neuroanatomical data by combining topological priors with encoder–decoder deep networks.” Nature machine intelligence 2, no. 10 (2020): 585-594. Link
- Tward, Daniel, Patrick J. Flannery, Stephen Savoia, Christopher Mezias, Samik Banerjee, Max S. Richman, Brianna M. Lodato et al. “3D multimodal histological atlas and coordinate framework for the mouse brain and head.” bioRxiv (2025): 2025-04. Link
- Daniel J Tward, Bryson D P Gray, Xu Li, Bingxing Huo, Samik Banerjee, Stephen Savoia, Christopher Mezias, Sukhendu Das, Michael I Miller, Partha P Mitra. “Solving the where problem and quantifying geometric variation in neuroanatomy using generative diffeomorphic mapping.” Biorxiv (2024): 2020-03. Link