ggFeatDens {BiocOncoTK} | R Documentation

## create ggplot for density of starts of a GRanges in an interval

### Description

create ggplot for density of starts of a GRanges in an interval

### Usage

    ggFeatDens(
      gr,
      mcolvbl,
      chrname = "chr15",
      start = 20450000,
      end = 20730000,
      binwidth.in = 5000,
      basicfilt = function(data) dplyr::filter(data, Consequence ==
        "non_coding_transcript_exon_variant"),
      ylab.in = "feature\ndensity",
      slstyle = "UCSC"
    )

### Arguments

`gr` | GRanges instance of interest
`mcolvbl` | character(1) mcols(gr) has this variable that will be used to specify different groups for computing/colouring the density traces
`chrname` | character(1) chromosome/seqname
`start` | numeric(1) start of interval
`end` | numeric(1) end of interval
`binwidth.in` | numeric(1) for geom_freqpoly binwidth setting
`basicfilt` | a dplyr::filter operation, defaulting to select non-coding variants in mc3 MAF
`ylab.in` | character(1) label for y axis
`slstyle` | character(1) for GenomeInfoDb::seqlevelsStyle

### Value

ggplot instance

### Examples

    ggFeatDens

[Package BiocOncoTK version 1.7.1 Index]