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))  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.