Visualization And Interpretation Of Go Terms
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11.0 years ago
deschisandy ▴ 60

hi,

I have performed the Gene Set Enrichment Analysis using the GO Stats package in R and have the Over represented set of genes and their annotated GO terms.

I would like to visualize them as a tree structure to study the relationships.

The number of enriched terms are:

       dim(summary(hgOvermatch, pvalue=0.05))
          [1] 214   7

I know there are other packages to create the GO Tree visualization but one needs to perform the analysis within the tool to get the graphs. I also tried using AMIGO to visualize the tree structure but since there are more than 50 terms this is a problem.

I would like to know how to interpret these terms further and also to view them as a tree structure.

Thanks

r • 3.7k views
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3
Entering edit mode
11.0 years ago
Bioch'Ti ★ 1.1k

Hi, the REVIGO tool allow to visualize the output of a GO enrichment test: give it a try. See : http://revigo.irb.hr/

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