ELMER (version 1.4.2)

getGeneInfo: getGeneInfo to extract geneInfo slot from MEE.data or Pair object.

Description

getGeneInfo is a function to easily extract geneInfo out of a MEE.data or Pair object. By specifying geneID or symbol, geneInfo for the defined genes (geneID or symbol) will be extracted out of MEE.data or Pair object. When range is specified, the geneInfo falling into the range will be extracted.

Usage

getGeneInfo(object, geneID, symbol, range)
"getGeneInfo"(object, geneID, symbol, range)

Arguments

object

MEE.data or Pair object

geneID

A vector of genes' id. When specified, only these gene coordinates will be output.

symbol

A vector of genes' symbols . When specified, only these gene coordinates will be output.

range

A GRanges object. When specified, only the geneInfo locating within these loci will be output.

Value

Gene annotation information such as gene id, symbol and coordinates.

Examples

geneInfo <- txs()
mee <- fetch.mee(geneInfo=geneInfo)
Genes <- getGeneInfo(mee, geneID = "55811")
Genes <- getGeneInfo(mee, symbol ="ADCY10")
Genes <- getGeneInfo(mee, range = GRanges(seqnames="chr1", ranges=IRanges(1000000,1600000)))