DataFrameQuantitativeTrack-class {igvR} | R Documentation

## Constructor for DataFrameQuantitativeTrack

### Description

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

### Usage

    DataFrameQuantitativeTrack(
      trackName,
      quantitativeData,
      color = "blue",
      trackHeight = 50,
      autoscale,
      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 base R `data.frame`
`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 DataFrameQuantitativeTrack object

### See Also

DataFrameAnnotationTrack

GRangesQuantitativeTrack

GRangesAnnotationTrack

DataFrameAnnotationTrack

DataFrameQuantitativeTrack

GRangesAnnotationTrack

GRangesQuantitativeTrack

GenomicAlignmentTrack

UCSCBedAnnotationTrack

UCSCBedGraphQuantitativeTrack

VariantTrack

igvAnnotationTrack

### 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),
                      score=runif(3),
                      stringsAsFactors=FALSE)

    track <- DataFrameQuantitativeTrack("dataframeTest", tbl, autoscale=TRUE)

[Package igvR version 1.14.0 Index]