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Can I visualize individual genes of pathways when running goanna or kegga?

Hi,

I was running goanna and kegga in R:

kegga.de=kegga(lrt, species="Mm")
go <- goana(lrt, species= 'Mm')
topGO(go, n=50)

For both the output is a list of pathways that show a number of uregulated, downregulated, or unchanged genes. See below:

goana result

Is there any simple way to visualize which of the genes are actually up or down in these pathways? I have previously used the Desktop version of GSEA by the Broad Institute, which allows nice visualization of these things.

Thank you!

r rna-seq
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updated by Istvan Albert Istvan Albert • written by biopat • biopat

Hi pat.longjump , I inadvertently messed up your post. Trying to fix the link to the image, I inserted an iframe in your post, which simultaneously scrambled the text, did not fix the image link, and made your post un-editable.

The image link you provided before didn't work because the link has to be to the image file, which I think google drive doens't allow.

If possible, to tidy up the forum, could you 1) copy the current post content into a new post, deleting the iframelink from it, and 2) then delete this post.

I am terribly sorry for messing up, and for the trouble.

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written by h.mon h.mon

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