GO analysis in R vs website
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Entering edit mode
8 days ago
Thomas • 0

Hi all,

I'm trying to do a Gene Ontology with the Gost function. I'm working on sheep, which I believe can be referred to as "oaries" or "oarambouillet".

I'm facing a bit of an issue, as when I'm trying to run the gost I get this error:

No results to show
Please make sure that the organism is correct or set significant = FALSE


I've tried both organisms, as well as setting significant to false, but it's not working. One funny bit though is that if I ask the function to generate a short link, the query runs on the GO website.

Does anyone knows why it runs on the website but not in R ?


GO_Analysis=gost(query=Result_table_B_ASHR\$ID,
organism =  "oaries",
ordered_query = TRUE,
multi_query = FALSE,
significant = TRUE,
exclude_iea = FALSE,
measure_underrepresentation = FALSE,
evcodes = TRUE,
domain_scope = "known",
correction_method = "fdr",
user_threshold = 0.05,
custom_bg = NULL,
numeric_ns = "ENTREZGENE_ACC",
sources =c("GO:MF","GO:BP","KEGG", "GO:CC"),


Thanks a lot !

GO • 112 views