Question: Visualizing gene density along the chromosome
1
gravatar for yh362
8 months ago by
yh36230
yh36230 wrote:

I want to visualize gene density along several chromosomes as a heatmap like the supplementary figure 13 in this link https://static-content.springer.com/esm/art%3A10.1038%2Fs41588-019-0405-z/MediaObjects/41588_2019_405_MOESM1_ESM.pdf

Hope someone could recommend some python or R packages for doing that. Great thanks!

R python • 360 views
ADD COMMENTlink modified 8 months ago by igor9.6k • written 8 months ago by yh36230

If Perl is also OK for you: DensityMap.

ADD REPLYlink written 8 months ago by SMK1.9k
2
gravatar for igor
8 months ago by
igor9.6k
United States
igor9.6k wrote:

You should try karyoploteR. It comes with a tutorial specifically for plotting the density of genes along the genome.

enter image description here

This is just one visualization. The karyoploteR package has a lot of different settings to change the exact appearance.

ADD COMMENTlink written 8 months ago by igor9.6k
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