Plot semantic similarity termtree

Plot semantic similarity termtree

plot_termtree(
  genelist,
  genesets,
  map_organism = 9606,
  effectsize_threshold = 1,
  Nterms = NA,
  Nwords = 5,
  Nclusters = 3
)

Arguments

genelist

GOAT current genelist from selected enrichment sample

genesets

GOAT filtered genesets

map_organism

integer, default: 9606 (human) - input organism ID that will be mapped to org.Xx.eg.db

effectsize_threshold

numerical, default: 1 - genelist effectsize threshold

Nterms

integer, default: NA to plat all terms, integer sets amount of terms to plot

Nwords

integer, default: 5, sets N summarized words per cluster

Nclusters

integer, default: 1, sets N clusters of terms

Value

ggtree/gg/ggplot object

Examples

plot_termtree(
  genelist = get(load(system.file("extdata", "example_genelist.rda", package = "goatea"))),
  genesets = get(load(system.file("extdata", "example_genesets.rda", package = "goatea")))
)