Making row and column names visible on heatmap.

Question

[lokraj2003]

I am using Shiny heatmap tool to generate a heatmap from a matrix that has 109 rows and 109 columns. I got a nice heatmap but there is no way I can see row or column names. Is there any way to format this graph so that row and column names are visible.

[srgk26ster]

HI! I appreciate that this has been a long time since your question, and may not directly answer your question. But I just developed a Julia-based GUI tool to plot heatmaps based on Python's Seaborn package, just wanted to share it here. It's not based, but you may find it useful. Takes 10-15 min to get it running. Very minimal/no coding is required for this. This is the link with the full instructions and information:

https://github.com/srgk26/easy_plotting.app

[lokraj2003]

Thanks Guys. I will try the links !

Answer 1

[Kevin Blighe]

Yikes, why would you use such a tool? Just use the heatmap.2 function from gplots package in R. The size of the labels can then be controlled by either modifying the dimensions of the saved output file and/or via the cexRow and cexCol parameters.

Some examples:

• A: Heatmap based with FPKM values
• A: How to plot a heatmap with two different distance matrices for X and Y (ComplexHeatmap)
• A: Complex Heatmap: Changing order of clusters (ComplexHeatmap)
• A: extract dendrogram cluster from pheatmap (pheatmap)

Answer 2

[Jean-Karim Heriche]

See also this previous post listing various heatmap packages and links to tutorials. As mentioned, typically, one makes text readable by controlling both the plot and the text sizes.