Cell Type Weighted Dimensionality Reduction (opens in new tab)

High-dimensional single-cell technologies, such as flow cytometry and CITE-Seq, typically rely on established lineage markers to define cell identities. Additional markers are commonly analyzed within the context of these predefined cell types. Nonlinear projection methods such as t-SNE and UMAP provide a visual framework for this analysis by enabling the overlay of cell types and marker expression. However, these methods frequently produce projections where distinct cell types substantially ...