NBSpliceRes-plotGeneResults: Method to obtain isoform's relative expression barplot for an...

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

Description

plotGeneResults returns ggplot object which illustrates the isoform's relative expression in the two contrasted conditions.

Usage

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plotGeneResults(myNBRes, gene, filterLowExpIso = TRUE,
    filterNotSignificant = TRUE, adjusted = TRUE, p.value = 0.05,
    group = TRUE)

## S4 method for signature 'NBSpliceRes'
plotGeneResults(myNBRes, gene, filterLowExpIso = TRUE,
    filterNotSignificant = TRUE, adjusted = TRUE, p.value = 0.05,
    group = TRUE)

Arguments

myNBRes

NBSpliceRes class object.

gene

Character indicating the gene name.

filterLowExpIso

Logical indicating if lower-expression isoforms should be filtered out.

filterNotSignificant

Logical indicating if not significant isoforms should be filtered out.

adjusted

Logical indicating if adjusted p values should be used.

p.value

Numeric value between 0 and 1 giving the required family-wise error rate or false discovery rate.

group

Logical indicating if isoforms bars should be stacked or not

Value

A ggplot object.

Note

see full example in NBSpliceRes-class

Author(s)

Gabriela A. Merino merino.gabriela33@gmail.com and Elmer A. Fernandez efernandez@bdmg.com.ar

See Also

NBSpliceRes

Other NBSpliceRes: GetDSGenes, GetDSResults, GetGeneResults, NBSpliceRes-class, NBSpliceRes-initialize, NBSpliceRes, myDSResults, plotRatiosDisp, plotVolcano

Examples

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data(myDSResults, package="NBSplice")
gene<-results(myDSResults)[,"gene"][1]
##Plot gene results filtering low expressed isoforms
g<-plotGeneResults(myDSResults, gene)
if(interactive()){
g
}
##Plot gene results keeping low expressed isoforms
g<-plotGeneResults(myDSResults, gene, filterLowExpIso=FALSE)
if(interactive()){
g
}
##Plot isoform bar plots keeping low expressed isoforms
g<-plotGeneResults(myDSResults, gene, filterLowExpIso=FALSE, group=FALSE)
if(interactive()){
g
}

gamerino/NBSplice documentation built on Sept. 10, 2021, 10:21 p.m.