Success (With warning)

[Hamed Khedmatgozar]

Dear GSEA group, 

I have run some datasets and all were good. For one data set, I got the following error. Is it something I need to worry about or do I need to do something for that? 

ERROR: 

• Scoring produced infinite or NaNs values which may have prevented plotting for certain gene sets. See the log for more details.
• 
  

Thank you, 

Hamed

[Anthony Castanza]

Hi Hamed,

 

When a dataset has NA (missing) or NaN (result of a divide by zero) or +/-Inf results either in the input or in the result of GSEA’s calculations, any gene sets that contain a gene with these values can’t properly be evaluated, also resulting in an inability to plot the enrichment score calculation. You’ll need to take a look through your results for sets where either plotting errored or there are non-numeric results reported for pValues/FDRs etc.

 

-Anthony

 

Anthony S. Castanza, PhD

Curator, Molecular Signatures Database

Mesirov Lab, Department of Medicine

University of California, San Diego

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