Guido Hooiveld

Please use the latest version of `clusterProfiler` and `enrichplot`. See: https://github.com/YuLab-SMU/enrichplot/issues/244

Mmm, R-4.3.x: https://cran.r-project.org/ Bioconductor v3.17: https://bioconductor.org/packages/release/bioc/html/clusterProfiler.html and https://bioconductor.org/packages/release/bioc/html/enrichplot.html

Yep! Sorry if that was not immediately clear to you...

I believe the issue is that the `hgnc` symbols are not recognized c.q. compatible with the `org.Hs.eg.db` annotation, which is NCBI-based. If the corresponding `ENTREZID` are used, GO terms are...

For the archive: I have reported this issue at the Bioconductor support site, and it turns out that in the `OrgDb` the 'default' names and symbols are used, and not...

For the archive: since Bioconductor release `3.21` the official symbols are used in `org.Hs.eg.db`. The code in the 1st post thus works. ``` > library(org.Hs.eg.db) > library(clusterProfiler) > library(org.Hs.eg.db) >...

I agree that it might be somewhat counter-intuitive, but to _**exclusively**_ filter on `qvalue` set the argument `pvalueCutoff` to 1 (`pvalueCutoff = 1`). See example 3 below. Since in your...

AFAIK there is no build-in option to do this. Yet, since the output of `dotplot` is a `ggplot2`-object, it is relatively easy to tweak the resulting plot. For example, if...

Does `ggsave` work for you when you run it manually? I am asking because for me it does... Also, in the past I have read somewhere (I forgot which site)...

By knowing that the plots generated by `enrichplot` are `ggplot2`-objects, this is relatively straight-forward to do; you can just add/remove layers to/from the plot. In order to fully reproduce the...