plotNtdPercentage {TarSeqQC} | R Documentation

## Plot nucleotide read percentages for a particular feature.

### Description

`plotNtdPercentage` plots the percentages of the ocurrence of each nucleotide in each position for a selected feature.

### Usage

    plotNtdPercentage(object, featureID, BPPARAM = bpparam())

    ## S4 method for signature 'TargetExperiment'
    plotNtdPercentage(object, featureID,
        BPPARAM = bpparam())

### Arguments

`object` | a TargetExperiment object.
`featureID` | a character indicating the feature ID.
`BPPARAM` | An optional BiocParallelParam instance defining the parallel back-end to be used during evaluation. returned by the function.

### Value

ggplot2 graphics

### Note

see full example in `TargetExperiment-class`

### Author(s)

Gabriela A. Merino gmerino@bdmg.com.ar, Cristobal Fresno cfresno@bdmg.com.ar, Yanina Murua ymurua@leloir.org.ar, Andrea S. Llera allera@leloir.org.ar and Elmer A. Fernandez efernandez@bdmg.com.ar

### See Also

`plotFeature`

### Examples

    ## loading TargetExperiment object
    data(ampliPanel, package="TarSeqQC")
    ## Defining bam file, bed file and fasta file names and paths
    setBamFile(ampliPanel)<-system.file("extdata", "mybam.bam",
        package="TarSeqQC", mustWork=TRUE)
    setFastaFile(ampliPanel)<-system.file("extdata", "myfasta.fa",
        package="TarSeqQC", mustWork=TRUE)
    # Exploring the nucleotide percentages compositions of the read counts for a
    # particular amplicon
    g<-plotNtdPercentage(ampliPanel,featureID="AMPL20")
    if(interactive()){
    g
    }

[Package TarSeqQC version 1.10.0 Index]