ERROR: The number of annotated IDs for all functional categories are not from 5 to 2000 for the GSEA enrichment method.

[Heena]

Hi

I want to use GSEA - both pathway as well as gene ontology for analysis of my gene list

The list I am using contains gene names with logFC (as ranks) - tab separated

ex:

TUSC5      1.74800918061552
VEGFD      1.60887184486298
VPREB3    1.60264866731271

I am getting this error:

ERROR: The number of annotated IDs for all functional categories are not from 5 to 2000 for the GSEA enrichment method.

 

Please help!

Thanks

Heena

[Yuxing Liao]

Hi Heena,

Did you mean your list only contains 3 genes? The error is self explanatory; there is not enough annotations for the input. Usually it should be all genes measured in the experiment. Another possibility is choosing the wrong organism or ID type.

Yuxing

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