Question: gene expression level of a specific gene-set from cuffdiff output
0
gravatar for Giuseppe
3.3 years ago by
Giuseppe0
Italy
Giuseppe0 wrote:

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.

rna-seq cuffdiff cummerbund • 841 views
ADD COMMENTlink written 3.3 years ago by Giuseppe0

Your question is bit confusing, Do you like to construct heatmap for all your genes across different samples using FPKM values from cufflinks?

ADD REPLYlink written 3.3 years ago by EagleEye6.5k
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