T and NK cells were identified via RCAv2. Integration and sub-clustering of all NK and T cells were performed to identify non-CD4+ T cells as well as ILC and NK cells, and these cells were further integrated and sub-clustered. CD8+ T clusters were annotated based on marker genes, particularly heightened levels of GZMB expression, as well as the presence of TCR barcodes.
Inherited from author_cell_type
Set of Labels Description
These author cell type labels were assigned largely at the per-cluster level. We identified broad cell types using RCAv2-based clustering (B, CD34+ haematopoietic stem and progenitor cell (HSPC), myeloid, natural killer (NK), plasma cell, plasmacytoid dendritic cell (pDC), platelet, and T). We then performed cell population-specific (B; myeloid + pDC; CD4+ T and dnT; non-CD4+ T and NK and ILC) integration (Seurat RPCA) and sub-clustering (Louvain clustering), and annotated clusters based on their marker genes.
