single-cell-rna-analysis

Reproducible Scanpy workflow for human or mouse 10x scRNA-seq and snRNA-seq count matrices: single-sample descriptive QC, clustering and annotation, or comparative donor-aware pseudobulk DE and Milo DA; plus preflight validation, optional explicitly requested Harmony, checkpoints, resume, and a checksummed analysis bundle. Use for cell-called GEX matrices, not FASTQ, CITE-seq, ATAC, Multiome, spatial, trajectory,…