expressionBarplot {cummeRbund} | R Documentation |
A barplot of FPKM values with confidence intervals for a given gene, set of genes, or features of a gene (e.g. isoforms, TSS, CDS, etc).
## S4 method for signature 'CuffFeatureSet' expressionBarplot(object, logMode=TRUE, pseudocount=1.0, showErrorbars=TRUE, showStatus=TRUE, replicates=FALSE, ...)
object |
An object of class ('CuffFeatureSet','CuffGeneSet','CuffFeature','CuffGene') |
logMode |
A logical value whether or not to draw y-axis on log10 scale. Default = FALSE. |
pseudocount |
Numerical value added to each FPKM during log-transformation to avoid errors. |
showErrorbars |
A logical value whether or not to draw error bars. Default = TRUE |
showStatus |
A logical value whether or not to draw visual queues for quantification status of a given gene:condition. Default = TRUE |
replicates |
A logical value whether or not to plot individual replicates or aggregate condition values. |
... |
Additional arguments. |
None
A ggplot2 plot object
Need to implement logMode and features for this plotting method.
Loyal A. Goff
None
data(sampleData) PINK1 # sample CuffFeature object expressionBarplot(PINK1) #Barplot of PINK1 FPKM values expressionBarplot(PINK1@isoforms) #Barplot of PINK1 FPKM values faceted by isoforms