scHLAcount

scHLAcount/0.2.0: allows you to count molecules in single-cell RNA-seq data for class I genes HLA-A, B, and C; and class II genes DPA1, DPB1, DRA1, DRB1, DQA1, and DQB1 using a personalized reference genome. You can either use provided HLA types determined by alternative methods or call HLA types with this tool then quantify against those calls.

Link to homepage: https://github.com/10XGenomics/scHLAcount