grGeneAnnot: grGeneAnnot

In demuellae/muRtools: Mueller's R tools

grGeneAnnot

Description

get gene annotation for a GRanges object using a RegionSetDB region database object by linking to the nearest gene

Usage

grGeneAnnot(
  gr,
  rsdb,
  geneSetName = "genes_protein_coding",
  geneSetCollection = "Gencode",
  maxDist = 1e+05
)

Arguments

gr	GRanges object to liftOver
rsdb	RegionSetDB object containing a region set database from which gene annotation can be retrieved
geneSetName	Name of the region set containng gene annotation in the RegionSetDB
geneSetCollection	Name of the region set collection containng gene annotation in the RegionSetDB
maxDist	maximum distance for matching to nearest gene

Value

data.frame containing information on the nearest gene for each element in gr

demuellae/muRtools documentation built on Sept. 8, 2023, 4:32 p.m.