xenorefGenes_UCSC {coMET} | R Documentation

## Create a track for xeno-reference genes from the UCSC genome browser

### Description

Create a track for xeno-reference genes from the UCSC genome browser using the Gviz bioconductor package

### Usage

    xenorefGenes_UCSC(gen, chr, start, end,title="Other RefSeq", showId=FALSE)

### Arguments

`gen` | the name of the genome
`chr` | the chromosome of interest
`start` | the first position in the region of interest (the smallest value)
`end` | the last position in the region of interest (the largest value)
`title` | Name of tracks
`showId` | Show the ID of the genetic elements

### Value

A UcscTrack object of Gviz

### Author(s)

Tiphaine Martin

### References

http://bioconductor.org/packages/release/bioc/html/Gviz.html

### See Also

`ISCA_UCSC`, `GWAScatalog_UCSC`, `knownGenes_UCSC`, `genesName_ENSEMBL`, `GeneReviews_UCSC`, `GAD_UCSC`, `genes_ENSEMBL`,`transcript_ENSEMBL`,

### Examples

    library("Gviz")
    gen <- "hg38"
    chr <- "chr7"
    start <- 38290160
    end <- 38303219

    if(interactive()){
      xenogenestrack<-xenorefGenes_UCSC(gen,chr,start,end,showId=TRUE)
      plotTracks(xenogenestrack, from=start, to=end)
    } else {
      data(xenogenestrack)
      plotTracks(xenogenestrack, from=start, to=end)
    }

[Package coMET version 1.12.0 Index]