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R
ChIPseeker

getNearestFeatureIndicesAndDistances

getNearestFeatureIndicesAndDistances

Description

get index of features that closest to peak and calculate distance

Usage

getNearestFeatureIndicesAndDistances(
  peaks,
  features,
  sameStrand = FALSE,
  ignoreOverlap = FALSE,
  ignoreUpstream = FALSE,
  ignoreDownstream = FALSE,
  overlap = "TSS"
)

Arguments

peaks

peak in GRanges
features

features in GRanges
sameStrand

logical, whether find nearest gene in the same strand
ignoreOverlap

logical, whether ignore overlap of TSS with peak
ignoreUpstream

logical, if True only annotate gene at the 3' of the peak.
ignoreDownstream

logical, if True only annotate gene at the 5' of the peak.
overlap

one of "TSS" or "all"

Value

list

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

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