run_GSEA: GSEA

In Yutong441/TBdev: Infer a Trophoblast Developmental Trajectory

Description

GSEA

Usage

run_GSEA(
  markers,
  cluster_num,
  organism_db,
  organism_name = "human",
  enrich_area = "GO",
  ...
)

Arguments

markers	a dataframe with at least 3 columns: one for gene names (gene_col), one cluster (cluster_col) and one for ranking (FC). If they are not 'feature', 'group' and 'logFC' respectively, they need to be supplied as keyword arguments in ...
cluster_num	which cluster to compute enrichment
organism_db	which organism database, for example, org.Hs.eg.db
organism_name	which organism for KEGG and Reactome
enrich_area	either 'GO', 'KEGG' or 'reactome'

Yutong441/TBdev documentation built on Dec. 18, 2021, 8:22 p.m.