TargetExperiment-plotGeneAttrPerFeat: Plot the attribute value for all the features of a selected...

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

Description

plotGeneAttrPerFeat plots the achieved performance for each feature for a particular gene. The resulting graph shows one bar per each gene feature with heights according to its attribute value.

Usage

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plotGeneAttrPerFeat(object, geneID, overlap=FALSE, level="feature")

## S4 method for signature 'TargetExperiment'
plotGeneAttrPerFeat(object, geneID, overlap=FALSE,
level="feature")

Arguments

object

TargetExperiment object.

geneID

Character indicating the ID of the selected gene.

overlap

Logical indicating if the amplicons should be collapsed in overlapped regions.

level

Character indicating the level of the plot. Can be 'feature', to plot the features' attribute; 'region', to plot overlapped regions' attribute or 'both'to generate the two previos plots

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

plotAttrExpl

Examples

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## Loading the TargetExperiment object
data(ampliPanel, package="TarSeqQC")
## Exploring amplicon attribute values for a particular gene
# Ignoring amplicon overlapping 
g<-plotGeneAttrPerFeat(ampliPanel, geneID="gene4")
# Adjust text size
g<-g+theme(title=element_text(size=16), axis.title=element_text(size=16),
legend.text=element_text(size=14))
if(interactive()){
g
}
# Considering amplicon overlapping 
g<-plotGeneAttrPerFeat(ampliPanel, geneID="gene4", overlap=TRUE, level="both")
# Adjust text size
g<-g+theme(title=element_text(size=16), axis.title=element_text(size=16),
legend.text=element_text(size=14))
if(interactive()){
g
}

TarSeqQC documentation built on May 31, 2017, 11:40 a.m.

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