ClusterProfiler.GSEA.Compare: Perform GSE analysis across multiple group by cluster...

In ProfessionalFarmer/loonR: Common function in bioinformatics analysis

Perform GSE analysis across multiple group by cluster profiler

Description

Perform GSE analysis across multiple group by cluster profiler

Usage

ClusterProfiler.GSEA.Compare(
  gene,
  minGSSize = 10,
  qvalue = 0.05,
  exp.gene.type = "ENSEMBL",
  GO = FALSE,
  KEGG = FALSE,
  MSigDb = TRUE,
  Hallmark = TRUE
)

Arguments

gene	A list including multiple group. Vector names are gene.key and vector value are log fold chage
minGSSize	10
qvalue	0.05
exp.gene.type	key types of input phenotype. Default ENSEMBL, can by keytypes(org.Hs.eg.db)
GO	TRUE
KEGG	TRUE
MSigDb	TRUE
Hallmark	TRUE

ProfessionalFarmer/loonR documentation built on Oct. 9, 2024, 9:56 p.m.