scDIG: An R Shiny Application for Interactive Density-Based Gating of Single-Cell Proteomic and Transcriptomic Data (opens in new tab)

Delineating biologically meaningful cell populations within single-cell embedding spaces requires methods that balance expert guidance with reproducibility. We present **scDIG**, a Shiny-based tool that integrates bimodal index-driven feature selection, feature-weighted kernel density estimation, and interactive contour-based gating to define cell populations directly within two-dimensional projections of scRNA-seq and CITE-seq data. We applied **scDIG** to CITE-seq PBMC data from human subje...