Infer cell-cell communication for query data using reference
Usage
infer_query(
seurat_obj,
reference_path,
database,
celltype_col,
celltype_mapping = NULL,
save_path = NULL,
min_genes_per_cell = 50L,
debug_mode = FALSE,
k = NULL
)Arguments
- seurat_obj
Query Seurat object
- reference_path
Path to reference panel
- database
Database name or path
- celltype_col
Column name for cell type
- celltype_mapping
Optional named list mapping reference to query cell types
- save_path
Path to save results
- min_genes_per_cell
Minimum genes per cell
- debug_mode
Whether to output debug files
- k
Scaling factor for confidence interval (NULL for auto)