Please refer to any of these questions, many of these contain example code:

https://www.biostars.org/t/heatmap/?sort=views&limit=all%20time&q=

There are about 160 questions tagged heat map on Biostars, I believe that number is very sufficient. Most answers use R, but there many more overview questions spanning the whole time of existence of biostars. Among the most powerful GUI tools is J-Express Pro http://jexpress.bioinfo.no/site/ .

Hello hateprotoss!

We believe that this post does not fit the main topic of this site.

Closing this post as 'multiplicate' (duplicate implying only 2 ;). Suggesting to choose from one the 160 related threads, see my comment above, or otherwise make the question much more specific so we know what we can actually help you with.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

Cheers!

For Heat map generation here are two easy ways.
One is using Galaxy. It uses R clustering. Go to the Galaxy toolshed https://toolshed.g2.bx.psu.edu/ and look for tool named "heat_map_creation".
Enter a input matrix and uses R clustering techniques (you select from menu) and creates a heatmap to visualize in Galaxy as well.
The tool displays a summary and detail view with optional covariate bars It is explained how to run on YouTube

Another way is via a self-contained Docker container https://hub.docker.com/r/ngchm/ngchm-galaxy/
With how to use it at

Sincerely, Dr. Bob