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jokergoo / rGREAT

GREAT Analysis - Functional Enrichment on Genomic Regions
https://jokergoo.github.io/rGREAT
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different enrichment results between rGREAT and the web-based tool #39

Open Dragonlongzhilin opened 1 year ago

Dragonlongzhilin commented 1 year ago

Hi, I input the 16155 region into the rGREAT package and web-based tool with same parameters. job <- submitGreatJob(gr = gr, bg = NULL, species = "hg38")

I found the result from rGREAT and web was slightly different. enriched BP from rGREAT tool image enriched BPs from web tool image

The rGREAT enriched some larger regulatory domains, but the web tool did not. I want to know why.

alexying2110 commented 9 months ago

I think this might be related? https://jokergoo.github.io/rGREAT_suppl/compare_GO.html

This is pretty tricky and I'm seeing the same thing. Probably best to default to rGreat unless something in the web app matches the phenotype better?