map_tissue: Map cell type

In neurogenomics/MultiEWCE: Multi-Scale Target Explorer

Map cell type

Description

Map cell types to cell ontology terms.

Usage

map_tissue(
  results = NULL,
  map = KGExplorer::get_data_package(package = "MSTExplorer", name = "tissue_maps"),
  lvl = 10,
  uberon = KGExplorer::get_ontology(name = "uberon", lvl = lvl),
  return_agg = FALSE
)

Arguments

results	The cell type-phenotype enrichment results generated by gen_results and merged together with merge_results
map	Many:many mapping between tissue ontology terms and cell type ontology terms.
lvl	Depth of the ancestor terms to add. Will get the closest ancestor to this level if none have this exact level.
uberon	UBERON ontology object of class ontology_DAG.
return_agg	Return the aggregated results instead of merging with a table of association results.

Examples

results <- load_example_results()
results2 <- map_tissue(results = results)

neurogenomics/MultiEWCE documentation built on Sept. 28, 2024, 2:27 a.m.