scSPAF: Cell Similarity Purified Adaptive Fusion Network for Single-Cell Multi-Omics Clustering.

The rapid advancement of single-cell sequencing technology has generated vast amounts of multi-omics data, presenting unprecedented opportunities for single-cell multi-omics clustering analysis. However, existing single-cell clustering algorithms focus on extracting shared representations, overlooking the interactions and correlations among cells. This oversight inevitably leads to biased or confounded cell clustering results. In this paper, we propose a cell similarity purified adaptive fusion network for single-cell multi-omics clustering, named scSPAF, which adopts a multi-level fusion approach to thoroughly explore the consistency and complementarity of omics data. Specifically, we design a cell similarity purification module to accurately incorporate neighborhood information among cells into cell features, thereby purifying the latent representation that reflects cell correlations. In addition, we align attribute features from different omics to extract the consistent representation across omics. Simultaneously, by employing an adaptive fusion mechanism, we integrate representations of omics-specific and the consistent representation across omics to generate more discriminative representations of omics, further enhancing the clustering performance. Experimental results obtained from six real-world datasets demonstrate the superiority of the scSPAF algorithm when compared with other state-of-the-art methods. The demo code of this work is publicly available at https://shanghui-deng.github.io.