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emapplot (enrichplot) with compareCluster object does not work

Dear All

The sample from https://yulab-smu.github.io/clusterProfiler-book/chapter12.html results in the following:

> library(clusterProfiler)

> data(gcSample)

> xx <- compareCluster(gcSample, fun="enrichKEGG",
+                      organism="hsa", pvalueCutoff=0.05)

> p1 <- emapplot(xx)
Fehler in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'emapplot' for signature '"compareClusterResult"'

> p2 <- emapplot(xx,legend_n=2) 
Fehler in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'emapplot' for signature '"compareClusterResult"'

> p3 <- emapplot(xx,pie="count")
Fehler in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'emapplot' for signature '"compareClusterResult"'

> p4 <- emapplot(xx,pie="count", pie_scale=1.5, layout="kk")
Fehler in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function 'emapplot' for signature '"compareClusterResult"'

> cowplot::plot_grid(p1, p2, p3, p4, ncol=2, labels=LETTERS[1:4])
Fehler in cowplot::plot_grid(p1, p2, p3, p4, ncol = 2, labels = LETTERS[1:4]) : 
  Objekt 'p3' nicht gefunden

> sessionInfo()
R version 3.6.2 (2019-12-12)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Catalina 10.15.2

Is there a solution for this problem?

Thank you in advance.

BW RM

emapplot enrichplot clusterprofiler comparecluster
• 2,137 views • link
written by rapmic • rapmic

I see that you've asked this on the right forum: https://support.bioconductor.org/

Please do not cross-post. I'm closing this as it is more suited for bioconductor forum.

• 0 views • link
written by Ram Ram

Hello rapmic!

We believe that this post does not fit the main topic of this site.

OP has cross-posted to bioC forum, where it belongs.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

Cheers!

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written by Ram Ram

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