plot_annoDistance {FindIT2} | R Documentation

## plot_annoDistance

### Description

plot the distance distribution of mmAnno from mm_nearestGene, which helps you decide whehter your TF is promoter or enhancer dominant

### Usage

    plot_annoDistance(mmAnno, quantile = c(0.01, 0.99))

### Arguments

`mmAnno` | the annotated GRange object from mm_nearestGene
`quantile` | the quantile of distanceToTSS you want to show

### Value

a ggplot2 object

### Examples

    if (require(TxDb.Athaliana.BioMart.plantsmart28)) {
        Txdb <- TxDb.Athaliana.BioMart.plantsmart28
        seqlevels(Txdb) <- paste0("Chr", c(1:5, "M", "C"))

        peak_path <- system.file("extdata", "ChIP.bed.gz", package = "FindIT2")
        peak_GR <- loadPeakFile(peak_path)
        peakAnno <- mm_nearestGene(peak_GR, Txdb)
        plot_annoDistance(peakAnno)

    }

[Package FindIT2 version 1.0.3 Index]