Become an expert in R — Interactive courses, Cheat Sheets, certificates and more!
Get Started for Free
Documentation
R
ChIPseeker

enrichAnnoOverlap

enrichAnnoOverlap

Description

calcuate overlap significant of ChIP experiments based on their nearest gene annotation

Usage

enrichAnnoOverlap(
  queryPeak,
  targetPeak,
  TxDb = NULL,
  pAdjustMethod = "BH",
  chainFile = NULL,
  distanceToTSS_cutoff = NULL
)

Arguments

queryPeak

query bed file
targetPeak

target bed file(s) or folder containing bed files
TxDb

TxDb
pAdjustMethod

pvalue adjustment method
chainFile

chain file for liftOver
distanceToTSS_cutoff

restrict nearest gene annotation by distance cutoff

Value

data.frame

Author(s)

G Yu

ChIPseeker

ChIPseeker for ChIP peak Annotation, Comparison, and Visualization

v1.26.2
Artistic-2.0
Authors
Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>), Yun Yan [ctb], Hervé Pagès [ctb], Michael Kluge [ctb], Thomas Schwarzl [ctb], Zhougeng Xu [ctb]
Initial release

We don't support your browser anymore

Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.