gcContent_UCSC {coMET} | R Documentation

## Create one track of GC content from UCSC

### Description

Create a track of GC content from UCSC using the Gviz bioconductor package

### Usage

    gcContent_UCSC(gen, chr, start, end, title="GC Percent")

### 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

### Value

A UcscTrack object of Gviz

### Author(s)

Tiphaine Martin

### References

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

http://genome-euro.ucsc.edu/cgi-bin/hgTrackUi?hgsid=202839739_2hYQ1BAOuBMAR620GjrtdrFAy6dn&c=chr6&g=gc5Base

### Examples

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

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

[Package coMET version 1.26.0 Index]