dame_track {DAMEfinder} | R Documentation

## Plot score tracks

### Description

Plot score tracks

### Usage

    dame_track(
      dame,
      window = 0,
      positions = 0,
      derASM = NULL,
      ASM = NULL,
      colvec = NULL,
      plotSNP = FALSE
    )

### Arguments

`dame` | GRanges object containing a region of interest, or detected with find_dames
`window` | Number of CpG sites outside (up or down-stream) of the DAME should be plotted. Default = 0.
`positions` | Number of bp sites outside (up or down-stream) of the DAME should be plotted. Default = 0.
`derASM` | SummarizedExperiment object obtained from calc_derivedasm (Filtering should be done by the user)
`ASM` | SummarizedExperiment object obtained from calc_asm (Filtering should be done by the user)
`colvec` | Vector of colors (mainly useful for the SNP plot, because I add it with cowplot, so I don't export a ggplot, optional)
`plotSNP` | whether to add the SNP track, only if derASM is specified. Default = FALSE

### Value

Plot

### Examples

    library(GenomicRanges)
    DAME <- GRanges(19, IRanges(306443,310272))
    data('readtuples_output')
    ASM <- calc_asm(readtuples_output)
    SummarizedExperiment::colData(ASM)$group <- c(rep('CRC',3),rep('NORM',2))
    SummarizedExperiment::colData(ASM)$samples <- colnames(ASM)
    dame_track(dame = DAME,
               ASM = ASM)

[Package DAMEfinder version 1.2.0 Index]