common_classes {ontoProc} | R Documentation |
list and count samples with common ontological annotation in two SEs
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 ) } }