Question: clusterProfiler - Non model organism
gravatar for rozanskide
11 months ago by
rozanskide10 wrote:

Dear all,

I found clusterprofiler neat and really want to give it a try. However, Im working on a non model organism and without kegg database annotation but with custom compiled kegg representatives for the model.

Is it possible to work with custom kegg annotation using clusterprofiler? Can I provide the custom annotation and then do say kegg enrichment using this custom annotation as reference?




ADD COMMENTlink modified 11 months ago by Guangchuang Yu1.0k • written 11 months ago by rozanskide10
gravatar for Guangchuang Yu
11 months ago by
Guangchuang Yu1.0k
China/Guangzhou/Southern Medical University
Guangchuang Yu1.0k wrote:

clusterProfiler do support non model organisms. For GO you can use AnnotationHub to query GO annotation. For KEGG, it supports all organisms available in KEGG database as it use the online data, see

If you have customized annotation data, you can also use clusterProfiler to perform ORA or GSEA, please refer to

ADD COMMENTlink written 11 months ago by Guangchuang Yu1.0k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 228 users visited in the last hour