Guido Hooiveld

Although it is not that easy to find, this has been asked and answered before; see: https://github.com/YuLab-SMU/DOSE/issues/45 Specific for your case/question: First of all, you should use `set.seed()`, not `make.seed()`!...

I second this question / request. Thanks! It would be nice if `compareCluster` also could be run using `gseKEGG` as enrichment function.

Thanks for implementing this so quickly! It is *almost* working; that is: - `compareCluster()` now nicely accepts gseKEGG (GSEA) as input. - generation of the enrichplot works fine with the...

BTW, `setReadable() `does work on the compareCluster output when performing a ORA (so apparently not with a GSEA). (Chapter [14.1](https://yulab-smu.top/biomedical-knowledge-mining-book/clusterprofiler-comparecluster.html#comparing-multiple-gene-lists)). ``` > data(gcSample) > str(gcSample) List of 8 $ X1:...

Thanks for the advise; I indeed only installed (updated) from github `clusterProfiler` (v4.3.1) and `enrichplot` (1.15.1.992). Unfortunately, when installing `DOSE` from github (v3.21.1.9001) it did not solve the problem.... ```...

Yes, after update `DOSE` to its latest version the code above is working. Thanks alot! ``` > library(clusterProfiler) > library(enrichplot) > library(DOSE) > data(geneList, package="DOSE") > inputList test.out test.out test.out...

@sarahalshammery For your information: though I don't fully know whether the results is what you expected (only in group A (602) enriched gene sets are found), but your code as...

Thanks Alexey for your comments. If I repeatedly run GSEA either using the `DOSE` or `fgsea` algorithmic implementation, I noticed that for each of them the overlap of repeated analyses...

For your information: If I leave `group_category=FALSE` (default setting) your code works in my hands.... Yet, I don't know how to specify `group_category=TRUE` using the new way of providing arguments;...

Please show the exact code on how `ego2` was generated. Did you also notice the warning on the use of 'label'? Also note that you are using an old version...