How can I visualize the Gene Ontology hierarchy for a set of GO terms in R?
I have a vector of around 19 GO Biological Process terms (GO IDs). These terms all correspond to the same group of proteins, and I'm trying to better understand their relationships within the Gene Ontology hierarchy.
I can calculate the depth of each term, which gives me an idea of which terms are more general or more specific. However, what I would really like is to visualize the hierarchy.
Is there an R package or workflow that can do this? Any suggestions would be greatly appreciated!
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Arup Ghosh
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fnepo •
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This is an old tool, but it provides a tree-like representation of the GO terms. https://systemsbio.ucsd.edu/GoSurfer/index.htm
Thank for your help, then I find this https://amigo.geneontology.org/visualize?mode=client_amigo where you can query the go terms and plot the hierarchy tree.
Found another tool: https://github.com/ialbert/genescape-central