R: Draw Gene Names on a Data Track

RCircos.Gene.Name.Plot {RCircos} | R Documentation

## Draw Gene Names on a Data Track

### Description

Label gene names along chromosome ideogram or a data track. RCircos core components and graphic device must be initialized before drawing.

### Usage

    RCircos.Gene.Name.Plot(gene.data=NULL, name.col=NULL,
        track.num=NULL, side="in", inside.pos=NULL,
        outside.pos=NULL, genomic.columns=3, is.sorted=FALSE)

### Arguments

`gene.data` | A data frame. The first three columns should be chromosome name, start position, end position.
`name.col` | Non-negative integer, representing the ordinal number of the column in input data that contains gene names.
`track.num` | Non-negative integer, representing the ordinal number of the plot track where the gene names are plotted.
`side` | Character vector, either "in" or "out", representing the position related to chromosome ideogram.
`inside.pos` | Non-negative numeric, inside position (relative to the centre of plot area) of the track .
`outside.pos` | Non-negative numeric, outside position (relative to the centre of plot area) of the track.
`genomic.columns` | Non-negative integer, total number of columns for genomic position in each row. Must be either 3 or 2.
`is.sorted` | Logic, whether the data is sorted by chromosome names and start positions.

### Author(s)

Henry Zhang

### Examples

    ## Not run:
    library(RCircos)
    data(UCSC.HG19.Human.CytoBandIdeogram)
    data(RCircos.Gene.Label.Data)

    cyto.info <- UCSC.HG19.Human.CytoBandIdeogram
    RCircos.Set.Core.Components(cyto.info,
        chr.exclude=c("chrX", "chrY"),
        num.inside=10, num.outside=0)

    RCircos.Set.Plot.Area()
    RCircos.Chromosome.Ideogram.Plot()

    gene.data <- RCircos.Gene.Label.Data;
    RCircos.Gene.Name.Plot(gene.data, name.col=4,
        track.num=2, side="in")
    RCircos.Gene.Name.Plot(gene.data, name.col=4,
        track.num=2, side="out",
        inside.pos=2.5, outside.pos=3)

    ## End(Not run)

[Package RCircos version 1.2.0 Index]