plotGlobalAttrExpl {TarSeqQC} | R Documentation |
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
## 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 }