scOntoMatch (version 0.1.1)

plotMatchedOntoTree: Plot a ontology tree with matched ontology from ontoMatch

Description

Plot a ontology tree with matched ontology from ontoMatch

Usage

plotMatchedOntoTree(
  obj_list,
  ont,
  anno_col = "cell_ontology_mapped",
  onto_id_col,
  roots = c("CL:0000548"),
  ...
)

Value

a lit of matched ontology tree plot

Arguments

obj_list

a list of seurat obj files as the output of ontoMatch

ont

ontology object

anno_col

the cell ontology text annotation column name

onto_id_col

if also have ontology id column for direct mapping

roots

root ontology in tree to plot, default "animal cells" in cell ontology

...

additional parameters for ontologyPlot::onto_plot

Examples

if (FALSE) {
plotMatchedOntoTree(seurat_obj_list, ont, 'cell_ontology_mapped', 'ontology_id')
}