scHiCEmbed

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scHiCEmbed is a bin-specific embedding method for single-cell Hi-C contact matrices. It uses graph auto-encoders for embedding raw or scHiCluster-imputed single-cell Hi-C matrices. The embedding/latent matrices are used to model 3D genome and detect topologically associating domains (TADs) of individual cells.

Download

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scHiCEmbed package can be downloaded here (24M).

Reference

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1. Tong Liu and Zheng Wang. scHiCEmbed: Bin-Specific Embeddings of Single-Cell Hi-C Data Using Graph Auto-Encoders. Genes, 2022, 13(6):1048.

Contact

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For any questions or suggestions, please contact:
Dr. Zheng Wang
Department of Computer Science
University of Miami