ontoMultiMinimal: get the minimal ontology tree of a list of seurat objects by...

In scOntoMatch: Aligning Ontology Annotation Across Single Cell Datasets with 'scOntoMatch'

get the minimal ontology tree of a list of seurat objects by reducing descendant terms to ancestor terms return a named list of seurat objects with meta.data[["cell_ontology_base"]] storing the reduced ontology annotation

Description

get the minimal ontology tree of a list of seurat objects by reducing descendant terms to ancestor terms return a named list of seurat objects with meta.data[["cell_ontology_base"]] storing the reduced ontology annotation

Usage

ontoMultiMinimal(obj_list, ont, anno_col = "cell_ontology_base", onto_id_col)

Arguments

obj_list	a named list of seurat objects
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

a named list of seurat objects with meta.data[["cell_ontology_base"]]

Examples

## Not run: 
ontoMultiMinimal(seurat_obj_list, ont, "cell_ontology_base", 'ontology_id')

## End(Not run)

scOntoMatch documentation built on Nov. 2, 2023, 5:20 p.m.