Fig. 7.

CIDER can evaluate the biological accuracy of integration results without reliance on ground truth. A The diagram shows two scenarios, one, where the cell types from two batches are correctly aligned, and one, where the two heterogeneous cell types (1 and 3) from two batches are falsely aligned, often because of overcorrection. B The schematic diagram elucidates the workflow for assessing the integrated outcome to identify falsely aligned clusters, which have lower inter-group similarity. CIDER can identify the second scenario without prior information of cell types