dot-enrichment_map: Plot enrichment map

In hypeR: An R Package For Geneset Enrichment Workflows

Description

Plot enrichment map

Usage

.enrichment_map(
  hyp_df,
  genesets,
  similarity_metric = c("jaccard_similarity", "overlap_similarity"),
  similarity_cutoff = 0.2,
  pval_cutoff = 1,
  fdr_cutoff = 1,
  val = c("fdr", "pval"),
  top = NULL,
  title = ""
)

Arguments

hyp_df	A dataframe from a hyp object
genesets	A list of genesets
similarity_metric	Metric to calculate geneset similarity
similarity_cutoff	Geneset similarity cutoff
pval_cutoff	Filter results to be less than pval cutoff
fdr_cutoff	Filter results to be less than fdr cutoff
val	Choose significance value shown above nodes e.g. c("fdr", "pval")
top	Limit number of pathways shown
title	Plot title

Value

A visNetwork object

hypeR documentation built on Nov. 8, 2020, 8:19 p.m.