ontoMinimal {scOntoMatch}

get the minimal ontology tree of a dataset by reducing descendant terms to ancestor terms return obj meta.data[["cell_ontology_base"]] storing the reduced ontology annotation

Description

get the minimal ontology tree of a dataset by reducing descendant terms to ancestor terms return obj meta.data[["cell_ontology_base"]] storing the reduced ontology annotation

Usage

ontoMinimal(obj, ont, anno_col, onto_id_col)

Arguments

obj

the seurat object

ont

ontologyIndex object

anno_col

the cell ontology text annotation column name

onto_id_col

if also have ontology id column for direct mapping

Value

an seurat object with meta.data[["cell_ontology_base"]]

Examples

## Not run: 
ontoMinimal(obj = seurat_obj, ont = ont, anno_col = 'ontology_name', onto_id_col = 'ontology_id')

## End(Not run)