Question: how can we create heat map for only upregulated gene list
0
gravatar for anjanasoman007
8 months ago by
anjanasoman0070 wrote:

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

rna-seq • 325 views
ADD COMMENTlink modified 8 months ago by Antonio R. Franco4.0k • written 8 months ago by anjanasoman0070

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).

ADD REPLYlink written 8 months ago by cpad011211k
0
gravatar for Antonio R. Franco
8 months ago by
Spain. Universidad de Córdoba
Antonio R. Franco4.0k wrote:

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

ADD COMMENTlink written 8 months ago by Antonio R. Franco4.0k
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