getNearToExon {NoRCE} | R Documentation

## Get only those neighbouring genes that fall within exon region

### Description

Get only those neighbouring genes that fall within exon region

### Usage

    getNearToExon(
      bedfile,
      upstream,
      downstream,
      org_assembly = c("hg19", "hg38", "mm10", "dre10", "rn6", "dm6", "ce11", "sc3")
    )

### Arguments

`bedfile` | Input bed formated file
`upstream` | Maximum upstream distance from the TSS position
`downstream` | Maximum downstream distance from the TES position
`org_assembly` | genomee assembly of interest for the analysis. Possible assemblies are "mm10" for mouse, "dre10" for zebrafish, "rn6" for rat, "dm6" for fruit fly, "ce11" for worm, "sc3" for yeast, "hg19" and "hg38" for human

### Value

genes

### Examples

    regions <- system.file("extdata", "ncRegion.txt", package = "NoRCE")
    regionNC <- rtracklayer::import(regions, format = "BED")

    r<-getNearToExon(bedfile = regionNC,
                     upstream = 1000,
                     downstream = 2000,
                     org_assembly = 'hg19')

[Package NoRCE version 1.4.0 Index]