To draw a heatmap displaying DEGs associated with a specific KEGG pathway.

0

Entering edit mode

6 months ago

Biostars2200 • 0

Hello, I hope all of you having a great day.

I have difficulties drawing a heatmap displaying DEGs associated with a given KEGG pathway in R studio.

I used to conduct enrichment analysis for KEGG pathways, using 'FindAllMarkers' and 'compareCluster.'

There is a figure for reference, but the code is not available. (Reference: https://www.frontiersin.org/articles/10.3389/fmicb.2021.730892/full

enter image description here

Looking forward to getting help.

Please share expertise.

Thank you.

heatmap KEGG DEG • 593 views

ADD COMMENT • link updated 6 months ago by yhdist ▴ 70 • written 6 months ago by Biostars2200 • 0

0

Entering edit mode

See this question which asks the same thing: Annotating Proteins in heatmap with 1 or more pathways using R.

ADD REPLY • link 6 months ago by Mark ★ 1.5k

0

Entering edit mode

The article you shared probably generated their data through fgseaMultilevel (and then generated the plots by simply using ggplot). Is this how you generated your enrichment data?

ADD REPLY • link 6 months ago by yhdist ▴ 70

Login before adding your answer.