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Old 12-05-2016, 01:09 PM   #1
dacotahm
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Default CummeRbund - show individual k-means cluster plots

I'm using CummeRbund to visualize some RNA-Seq data. I can show expression patterns with this:
Code:
ic9 <- csCluster(sigGenes, k=9)
icp9 <- csClusterPlot(ic9)
icp9
...but that shows all 9 expression profiles. I would like to show individual plots that have specific patterns. i.e. How do I look at plots 2, 4, 9 individually?
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Old 12-06-2016, 11:30 AM   #2
dacotahm
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Default

Just to add more detail, the manual section 9.4 (page 39) shows how the clustering is organized. Is there a way to filter and plot only the reads for a specific cluster?

https://bioconductor.org/packages/re...und-manual.pdf
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