<p>I am analysing RNA-Seq data for a set of genes from different human brain regions using data from the Allen Brain Atlas. I have made a heatmap using <a href="https://www.graphpad.com/scientific-software/prism/" rel="nofollow noreferrer"><strong>GraphPad Prism</strong></a>. In this heatmap, I show the average RPKM value for each gene of interest for each brain region (the average is taken as there are multiple samples for each brain region).</p>
<p>I am new to creating heatmaps but I know that you can use different methods to cluster the heatmap so that the data is more easy to interpret. I want to cluster the heatmap so that the brain regions which have the highest level of gene expression overall are grouped together.</p>
<p>I have seen online that <code>R</code> can also be used to create a heatmap, and I have had previous experience with <code>R</code>. Does anyone have any recommendations on any good tutorials (that are not too difficult) on creating heat-maps in <code>R</code> as well as clustering the data?</p>

<r><heatmap>
Best methods for clustering heatmap based on regions where the genes are most highly expressed?
# Best methods for clustering heatmap based on regions where the genes are most highly expressed?

(Asked by: username_0 on 2021-12-27)

I am analysing RNA-Seq data for a set of genes from different human brain regions using data from the Allen Brain Atlas. I have made a heatmap using [**GraphPad Prism**](https://www.graphpad.com/scientific-software/prism/). In this heatmap, I show the average RPKM value for each gene of interest for each brain region (the average is taken as there are multiple samples for each brain region).

I am new to creating heatmaps but I know that you can use different methods to cluster the heatmap so that the data is more easy to interpret. I want to cluster the heatmap so that the brain regions which have the highest level of gene expression overall are grouped together.

I have seen online that `R` can also be used to create a heatmap, and I have had previous experience with `R`. Does anyone have any recommendations on any good tutorials (that are not too difficult) on creating heat-maps in `R` as well as clustering the data?

**Tags:** r, heatmap

---

## 0 answers

