Fun.enrich_withFC.pvalue: Fun.enrich_withFC.pvalue
In chenweng1991/EZsinglecell:

This function is to do GSEA enrichment analysis, to be updated

1 2	Fun.enrich_withFC.pvalue(markergenesList, All.genes = all.genes.refer, db = msig.db, qcutoff = 0.05, top = NULL)

`markergenesList`	is a list containing several elements each of which is a vector of gene names
`All.genes`	the background genes data(all.genes.refer)
`db`	=msig.db the term database to use, default is the msig.db; data(msig.db)
`qcutoff=0.05`	the term to show with q value lower than 0.05
`top=NULL`	pass a number to only show top # terms

this will return a simple object with two elements, one is the table to show the significant terms , the other one shows the gene names involved significant terms

chenweng1991/EZsinglecell documentation built on July 11, 2020, 3:23 p.m.