GSEA_kegg: GSEA_kegg

In Feng-Zhang/RNAseqFlow:

GSEA_kegg

Description

This function would plot volcano based on DESeqDEGres output and save as pdf and png format

Usage

GSEA_kegg(
  change_gene_List,
  organism = "hsa",
  db = org.Hs.eg.db,
  type = "SYMBOL",
  ...
)

Arguments

change_gene_List	a numeric vector of the fold change of genes. It must have name with ENTREZID.
organism	supported organism listed in 'http://www.genome.jp/kegg/catalog/org_list.html', such as hsa for human, mmu for mouse.
db	the annotation database of specific organism
type	the type of ids which must be one of idType(OrgDb = db) shows
...	Aavailable arguments to be passed to gseGO

Examples

## Not run: 
data(geneList, package="DOSE")
ekegg <- GSEAkegg(geneList)

## End(Not run)

Feng-Zhang/RNAseqFlow documentation built on Sept. 10, 2022, 7:13 a.m.