Plot semantic similarity termtree

Usage

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(get(load(system.file("extdata", "example_genelist.rda", package = "goatea"))))
#> Error in plot_termtree(get(load(system.file("extdata", "example_genelist.rda",     package = "goatea")))): argument "genesets" is missing, with no default