Hi, I first used enrichr and found an intesresting pathway enriched in my geneset. Then I wanted to use clusterProfiler with the same geneset but this time including background genes. My issue is that clusterProfiler gives completely different results compared to enrichr even when not including backrground genes in clusterProfiler. Of course I used the same database in both cases (bioplanet).
em <- clusterProfiler::enricher(genes, TERM2GENE= bioplanet,pAdjustMethod="BH", universe=background)
Is it expected to have so much discrepancy between these two widely used tools?