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hbctraining / DGE_workshop_salmon_online

https://hbctraining.github.io/DGE_workshop_salmon_online/
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update the demo code at bottom of viz lesson #19

Closed mistrm82 closed 2 years ago

mistrm82 commented 3 years ago

The code needs either a note to say this is just demo code do not run

OR

See if the code below works with the workshop dataset and update it to this:

DEGreport::degPlot(dds = dds, res = res_tableOE, n = 20, xs = "sampletype", group = "sampletype")
DEGreport::degVolcano(
  data.frame(res_tableOE_tb[,c("log2FoldChange","padj")]), # table - 2 columns
  plot_text = data.frame(res_tableOE_tb[1:10,c("log2FoldChange","padj", "symbol")]))
# Available in the newer version for R 3.4
mistrm82 commented 2 years ago

done