CNTools: A computational toolbox for cellular neighborhood analysis from multiplexed images.
PLoS Comput. Biol., 2024
GenomicKB: a knowledge graph for the human genome.
Nucleic Acids Res., January, 2023
Characterizing collaborative transcription regulation with a graph-based deep learning approach.
PLoS Comput. Biol., 2022
NucleoMap: A computational tool for identifying nucleosomes in ultra-high resolution contact maps.
PLoS Comput. Biol., 2022
scHiCTools: A computational toolbox for analyzing single-cell Hi-C data.
PLoS Comput. Biol., 2021
Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data.
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PLoS Comput. Biol., 2020
Jointly Embedding Multiple Single-Cell Omics Measurements.
Proceedings of the 19th International Workshop on Algorithms in Bioinformatics, 2019
Unsupervised embedding of single-cell Hi-C data.
Bioinform., 2018