gene expression level of a specific gene-set from cuffdiff output
I’m using CummeRbound for analyzing Cuffdiff output. I need to focus the analysis of expression dynamics to a restricted gene set (roughly 50-100 genes). My aim would be to construct a heat map where is plotted the expression level of selected genes across the samples.
From the manual they provided a function to "grab a single gene of interest":
myGeneId<-"XLOC_020405"
myGene<-getGene(cuff,myGeneId)
myGene
How can I extend this analysis from one single gene to a set of genes?
Thank you in advance.
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Giuseppe •
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Your question is bit confusing, Do you like to construct heatmap for all your genes across different samples using FPKM values from cufflinks?