TargetExperimentList-plotGlobalAttrExpl: Plot attribute exploration of a TargetExperimentList object.
In TarSeqQC: TARgeted SEQuencing Experiment Quality Control

Description Usage Arguments Value Note Author(s) See Also Examples

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.

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)

`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

ggplot2 graphics.

see full example in TargetExperimentList-class

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

plot

## 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
}