GRangesQuantitativeTrack-class {igvR} | R Documentation

## Constructor for GRangesQuantitativeTrack

### Description

`GRangesQuantitativeTrack` creates and `IGV` track for bed objects imported using `rtracklayer`

### Usage

    GRangesQuantitativeTrack(trackName, quantitativeData, color = "blue",
      trackHeight = 50, autoscale = TRUE, min = NA_real_,
      max = NA_real_, visibilityWindow = 1e+05)

### Arguments

`trackName` | A character string, used as track label by igv, we recommend unique names per track.
`quantitativeData` | A GRanges object with (at least) a "score" metadata column
`color` | A CSS color name (e.g., "red" or "#FF0000")
`trackHeight` | track height, typically in range 20 (for annotations) and up to 1000 (for large sample vcf files)
`autoscale` | Autoscale track to maximum value in view
`min` | Sets the minimum value for the data (y-axis) scale. Usually zero.
`max` | Sets the maximum value for the data (y-axis) scale. This value is ignored if autoscale is TRUE
`visibilityWindow` | Maximum window size in base pairs for which indexed annotations or variants are displayed. Defaults: 1 MB for variants, whole chromosome for other track types.

### Details

Detailed description goes here

### Value

A GRangesQuantitativeTrack object

### Examples

    base.loc <- 88883100
    tbl <- data.frame(chrom=rep("chr5", 3),
                      start=c(base.loc, base.loc+100, base.loc + 250),
                      end=c(base.loc + 50, base.loc+120, base.loc+290),
                      name=c("a", "b", "c"),
                      score=runif(3),
                      strand=rep("*", 3),
                      stringsAsFactors=FALSE)

    gr <- GRanges(tbl)
    track <- GRangesQuantitativeTrack("GRangesQTest", gr)

[Package igvR version 1.4.0 Index]