plotGlobalAttrExpl {TarSeqQC} | R Documentation

## Plot attribute exploration of a TargetExperimentList object.

### Description

`plotGlobalAttrExpl` displays box-plot of the analyzed achieved attribute values along all samples and at a feature level. This graphic could include density plot together the corresponding box-plot using the ggplot2 geom_violin method.

### Usage

    plotGlobalAttrExpl(object, attributeThres = c(0, 1, 50, 200, 500, Inf),
        dens = FALSE, log = FALSE, pool = FALSE, featureLabs = FALSE,
        medianMarg = NULL)

    ## S4 method for signature 'TargetExperimentList'
    plotGlobalAttrExpl(object,
        attributeThres = c(0, 1, 50, 200, 500, Inf), dens = FALSE, log = FALSE,
        pool = FALSE, featureLabs = FALSE, medianMarg = NULL)

### Arguments

`object` | TargetExperimentList class object.
`attributeThres` | Numeric indicating the attribute interval extreme values.
`dens` | Logical indicating if boxplot and density function should be plotted together using the ggplot2 geom_violin method or only the boxplot (dens=FALSE) should be displayed.
`log` | Logical indicating if the attribute should be considered in log10 scale.
`pool` | Logical indicating if the plots should be performed for each pool separately
`featureLabs` | logical indicating if feature names should be plotted
`medianMarg` | numeric indicating the percentage of the median attribute value to be plotted as lines. If it is NULL no line will be displayed

### Value

ggplot2 graphics.

### Note

see full example in `TargetExperimentList-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

`plot`

### Examples

    ## Loading the TargetExperimentList object
    data(TEList, package="TarSeqQC")

    # Attribute boxplot and density plot exploration
    g<-plotGlobalAttrExpl(TEList,log=FALSE)
    # x11(type="cairo")
    if(interactive()){
    g
    }

[Package TarSeqQC version 1.16.0 Index]