how can we create heat map for only upregulated gene list

Question

[anjanasoman007]

how can we create heat map for only upregulated gene list for FPKM treated vs control? I am getting two solid color for treated and control resp not gradient color

[cpad0112]

what is the criteria for upregulation? If you are using fc/lfc, use a cut off to filter the data frame for upregulated data. Then use one of the heatmap plotting libraries (heatmap2 from gplots, complexheatmap, pheatmap, heatmap3 etc).

Answer 1

[Antonio R. Franco]

You need to filter your data. There is not mention to the method you got your data, but you can use R, excel and many other programs to filter