In the tutorial for clusterProfiler, it mentions that the universal
enricher function can be combined with the biological theme
"The comparison function was designed as a framework for comparing gene clusters of any kind of ontology associations, not only
enricher provided in this package, but also other biological and biomedical ontologies"
I have used
enricher on MSigDB .gmt files that I downloaded and it works great. I am stuck on how to combine
- Should I run
enricher separately, and then somehow pass those results to
- Or can the
enricher call be included as an argument to
- Or are both of those wrong?!
If you have an example I would greatly appreciate it. Because of my Mac OS, I am stuck using:
R 3.3, Bioconductor 3.2, ClusterProfiler 2.4.3
Thank you for creating and sharing clusterProfiler ! The compatibility with so many types of ontologies and the visual enhancements over other ontology tools are wonderful!