Shaokai Wang

stEDGE reconstructs hierarchical spatial domains and transition interfaces in spatial transcriptomics by using edge-guided methods to capture multiscale organization beyond flat partitions.

Unimeth improves DNA methylation detection from nanopore reads across species and modification types by using a transformer framework with multi-phase training.

TopoLa enhances cell representations in single-cell and spatial omics by using topology-encoded latent hyperbolic geometry, improving performance across multiple tasks.

The paper introduces scMustree, a tree-construction algorithm that improves clustering accuracy and reveals functional associations among cell populations in scRNA-seq data.

This paper introduces scCAD, a method for identifying rare cell types in scRNA-seq data by iteratively decomposing clusters, and shows it outperforms existing methods across multiple datasets.

This paper introduces Dip3D, a method to reconstruct high-resolution diploid 3D human genomes from Pore-C data, achieving better performance than existing methods.