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NULL results using enricher #23

Open valeste opened 1 year ago

valeste commented 1 year ago

I am trying to complete a functional enrichment analysis of my annotated DEG list that I annotated with BLAST and UniProt. I have GO IDs and GO biological process and found that the enricher() from the clusterProfiler package would work best for my non-model organism especially given I already have the GO IDs. However, when I run the enricher function like down below, I keep getting NULL as the result. Any idea how to fix this?

https://github.com/course-fish546-2023/celeste-tunicate-devo/blob/260c59a9becbffb88f95ab53166f70ec4eec5db3/code/05-functional-enrich.md?plain=1#L193

Thanks in advanced for any advice!

sr320 commented 1 year ago

My guess is that NULL refers to there are not functional enriched GO terms... I would not expect any given the sample size here. You could also try https://bioconductor.org/packages/release/bioc/html/goseq.html - that is popular in lab