Fig. 1
From: One Cell At a Time (OCAT): a unified framework to integrate and analyze single-cell RNA-seq data
Schematic workflow of OCAT. When integrating multiple scRNA-seq datasets, OCAT first identifies “ghost” cells, centers of small cell neighborhoods, in each dataset. OCAT next constructs a bipartite graph connecting each cell to its most similar “ghost” cells. The edge weights connecting each cell’s closest “ghost” cells are treated as its OCAT sparse encoding. The OCAT sparse encoding can effectively correct the batch effect and facilitate various downstream analysis tasks, such as cell clustering, differential gene expression analysis, trajectory inference, and cell type inference