PE.plant: PFAM Enrichment analysis function based on ensemble plant...

Description Usage Arguments Author(s)

View source: R/PE.R

Description

PFAM Enrichment analysis function based on ensemble plant annotation data

Usage

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
11
PE.plant(
  df,
  PO_FILE,
  gene.cutoff = 0.01,
  padj.method = "BH",
  minSize = 2,
  maxSize = 500,
  keepRich = TRUE,
  filename = NULL,
  cutoff = 0.05
)

Arguments

df:

DGE files (DESeq2 result files) or vector contains gene names

PO_FILE:

PFAM annotation data, you can get the data by using makeplantann function

filename:

output filename

gene.cutoff:

DGE singificant cutoff value

Author(s)

Kai Guo


guokai8/EnrichR documentation built on May 18, 2020, 5:29 a.m.