simplify-methods: simplify method
In YuLab-SMU/clusterProfiler: A universal enrichment tool for interpreting omics data

simplify

R Documentation

simplify method

Description

simplify output from enrichGO and gseGO by removing redundancy of enriched GO terms

simplify output from compareCluster by removing redundancy of enriched GO terms

Usage

## S4 method for signature 'enrichResult'
simplify(
  x,
  cutoff = 0.7,
  by = "p.adjust",
  select_fun = min,
  measure = "Wang",
  semData = NULL
)

## S4 method for signature 'gseaResult'
simplify(
  x,
  cutoff = 0.7,
  by = "p.adjust",
  select_fun = min,
  measure = "Wang",
  semData = NULL
)

## S4 method for signature 'compareClusterResult'
simplify(
  x,
  cutoff = 0.7,
  by = "p.adjust",
  select_fun = min,
  measure = "Wang",
  semData = NULL
)

Arguments

`x`	output of enrichGO
`cutoff`	similarity cutoff
`by`	feature to select representative term, selected by 'select_fun' function
`select_fun`	function to select feature passed by 'by' parameter
`measure`	method to measure similarity
`semData`	GOSemSimDATA object