Obtain all possible gene paths for an RNA-seq experiments with ordered conditions
output from EBSeqHMMTest function
if specifies as TRUE, only dynamic paths will be shown
GetAllPaths() function may be used to generate all possible expression paths of a particular design.
output: a vector of paths. For example, Up-Up-Up-Up, Up-Up-EE-EE, Up-Down-Up-EE, etc.
1 2 3 4 5 6 7
data(GeneExampleData) CondVector <- rep(paste("t",1:5,sep=""),each=3) Conditions <- factor(CondVector, levels=c("t1","t2","t3","t4","t5")) Sizes <- MedianNorm(GeneExampleData) EBSeqHMMGeneOut <- EBSeqHMMTest(Data=GeneExampleData, sizeFactors=Sizes, Conditions=Conditions, UpdateRd=2) AllPaths <- GetAllPaths(EBSeqHMMGeneOut)
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.