scHiMe is a computational tool for predicting the base-pair-specific methylation levels in the promoter regions genome-wide based on the single-cell Hi-C data and DNA nucleotide sequences using the graph transformer algorithm.
The supplementary data mentioned in scHiMe's paper including the cell-type clustering results of the top 200 promoters and top 1000 CpGs can be downloaded from here.
The standalone package of scHiMe can be downloaded from here.
The scHiMe predictions on dataset 1 as mentioned in the paper can be downloaded from here.
The scHiMe predictions on dataset 2 as mentioned in the paper can be downloaded from here.
scHiMe is also available for download on GitHub, and the link is here.
Zhu H, Liu T, Wang Z: scHiMe: predicting single-cell DNA methylation levels based on single-cell Hi-C data. Briefings in Bioinformatics, 06 2023. bbad223.
For any questions or suggestions, please contact:
Dr. Zheng Wang
Department of Computer Science
University of Miami