Alignment comparison of cell embeddings across data sets by CAME and four other methods. (A) The UMAP plots of the cell embeddings by CAME and four integration methods on the scRNA-seq data from turtle (reference) and mouse (query) brains. Cells are colored by their cell types (the first column) or data set identities (the second column). (B) Similar settings to A. Here the reference data sets are the human pancreatic scRNA-seq data from eight batches by three different platforms, and the query is from mouse pancreas cells. The UMAP plots of the third column show the reference cells, colored by batch identities. The scores under both the figures in A and B represent the graph connectivity score for each method.
