coMET (version 1.4.4)

GeneReviews_UCSC: Create one track of the genomic positions of variants from GeneReviews

Description

Create one track of the genomic positions of variants from GeneReviews using the Gviz bioconductor package

Usage

GeneReviews_UCSC(gen, chr, start, end, 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)

showId

Show the ID of the genetic elements

Value

An UcscTrack object of Gviz

References

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

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

See Also

ISCA_UCSC, GWAScatalog_UCSC, knownGenes_UCSC, genesName_ENSEMBL, GAD_UCSC, genes_ENSEMBL, xenorefGenes_UCSC, transcript_ENSEMBL,

Examples

library("Gviz")
gen <- "hg38"
chrom <- "chr2"
start <- 10000000
end <- 100000000
if(interactive()){
  geneRtrack <-GeneReviews_UCSC(gen,chrom,start,end,showId=TRUE)
  plotTracks(geneRtrack, from = start, to = end)
} else {
  data(GeneReviewTrack)
  plotTracks(geneRtrack, from = start, to = end)
}