segmentalDups_UCSC {coMET} | R Documentation

## Create one track of the genomic positions of regions from segmentalDups_UCSC

### Description

Create one track of the genomic positions of regions from segmentalDups_UCSC using the Gviz bioconductor package

### Usage

    segmentalDups_UCSC(gen, chr, start, end,title="Segmental Dups UCSC")

### 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` | The name of the annotation track

### Value

An UcscTrack object of Gviz

### Author(s)

Tiphaine Martin

Tom Hardiman

### References

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

http://genome-euro.ucsc.edu/cgi-bin/hgTrackUi?hgsid=202839739_2hYQ1BAOuBMAR620GjrtdrFAy6dn&c=chr6&g=rmsk

### Examples

    library("Gviz")
    gen <- "hg38"
    chr <- "chr2"
    start <- 100000
    end <- 200000

    if(interactive()){
      DupTrack <-segmentalDups_UCSC(gen,chr,start,end)
      plotTracks(DupTrack, from = start, to = end)
    } else {
      data(DupTrack)
      plotTracks(DupTrack, from = start, to = end)
    }

[Package coMET version 1.16.0 Index]