simplify-methods: simplify method

In aiminy/ModifiedclusterProfiler: statistical analysis and visualization of functional profiles for genes and gene clusters

Description

simplify output from enrichGO 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 '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

Value

updated enrichResult object

updated compareClusterResult object

Author(s)

Guangchuang Yu

Guangchuang Yu

References

issue #28 https://github.com/GuangchuangYu/clusterProfiler/issues/28

aiminy/ModifiedclusterProfiler documentation built on May 10, 2019, 7:37 a.m.