perform_go_enrichmet: Perform GO enrichment using clusterProfiler

In cparsania/FungiExpresZ: FungiExpresZ: Fungal gene expression data analysis and visualizations

Perform GO enrichment using clusterProfiler

Description

It uses one of the two functions clusterProfiler::enricher or clusterProfiler::compareCluster

Usage

perform_go_enrichmet(
  genome,
  query_genes,
  pval_cutoff = 1,
  qval_cutoff = 1,
  p_adjust_method = "BH",
  ontology = "Biological Process",
  min_gs_size = 10,
  max_gs_size = 500,
  cross_ref_go_db = TRUE
)

Arguments

genome	name of the target species genome. It must match to the genome column of ah_data_summary2 object
query_genes	internal
pval_cutoff	internal
qval_cutoff	internal
p_adjust_method	internal
ontology	internal
min_gs_size	internal
max_gs_size	internal
cross_ref_go_db	internal

Value

internal

cparsania/FungiExpresZ documentation built on March 15, 2024, 5:48 p.m.