common_classes: list and count samples with common ontological annotation in...
In ontoProc: processing of ontologies of anatomy, cell lines, and so on

Description Usage Arguments Value Examples

list and count samples with common ontological annotation in two SEs

1	common_classes(ont, se1, se2)

`ont`	instance of ontologyIndex ontology
`se1`	a SummarizedExperiment using 'label.ont' in colData to provide ontological tags (from 'ont') for samples
`se2`	a SummarizedExperiment using 'label.ont' in colData to provide ontological tags (from 'ont') for samples

a data.frame with rownames given by the common tags, the class names as column 'clname', and counts of samples bearing the given tags in remaining columns.

if (requireNamespace("celldex")) {
  imm = celldex::ImmGenData()
  if ("label.ont" %in% names(colData(imm))) {
    cl = getCellOnto()
    blu = celldex::BlueprintEncodeData()
    common_classes( cl, imm, blu )
    }
  }