Fig. 5: SCALPEL provides isoform quantification on individual cells using paired short and long scRNA-seq datasets.
From: Quantification of transcript isoforms at the single-cell level using SCALPEL
a UMAP plots depicting the main five cell populations selected from Jogleklar et al. identified using gene and isoform-based quantifications including excitatory neurons (EN), neural progenitor cells (NPCs), oligodendrocytes (Olig), astrocytes (Astro) and microglia (MIG). b Comparison of isoform expression quantification for each cell type using isoquant (PacBio data) and SCALPEL. c, d SCALPEL identifies changes in isoform usage in Cdc42 (c) and Dclk1 (d) between astrocytes/microglia and excitatory neurons. Custom tracks on top show the mapping of filtered short reads and SCALPEL quantification for each cell type. On the bottom, sashimi plots show the relative usage of different isoforms in individual cell types and the aligned long-read data supporting them. Source data are provided as a Source Data file.
