netHG: Construct functional enrichment network

In NMikolajewicz/scMiko: scRNAseq analysis functions. Developed using Seurat framework.

Construct functional enrichment network

Description

Construct functional enrichment network

Usage

netHG(
  hg.res,
  gene.list,
  species,
  fdr.filter = 0.1,
  edge.threshold = 0.25,
  cex_line = 0.2,
  pie = "Count",
  gene.universe = NULL,
  verbose = T
)

Arguments

hg.res	Output from runHG(...)
gene.list	Named list of genesets used in runHG(...).
species	Species. One of "Mm" (mouse) or "Hs" (human)
fdr.filter	Significance threshold. Default is 0.1.
edge.threshold	Edge threshold for visualization. Default is 0.25.
cex_line	Edge size. Default is 0.2.
gene.universe	Gene universe (symbol format). If not specified, uses all genes provided in gene.list.
verbose	Print progress. Default is TRUE.

Value

enrichment results

Author(s)

Nicholas Mikolajewicz

See Also

runHG

NMikolajewicz/scMiko documentation built on June 28, 2023, 1:41 p.m.