testEnrichmentFisher function help

[ardan33]

Hello- I am trying to look at the difference between the normalized sdf's of three doses (Control, Low, High). I have loaded my covariates into the global environment, but I am at a loss as to how the testEnrichmentFisher function works and what the input should be.

I tried:
testEnrichmentFisher(sdf_normalized,covariates,universe,alternative="greater")

and got the error that : Error in testEnrichmentFisher(sdf_normalized, covariates, universe, alternative = "greater") :
could not find function "testEnrichmentFisher"

I read the sesame pdf and it mentions this function, so I am not sure what package I need to install for the function to exist, as I already installed sesame?

And once I install it, are my inputs correct (where sdf_normalized is the normalized sdf using openSesame, covariates is a matrix (consisting of 36 rows x 6 columns - sentrix_ID, sentrix_position, sample name, sex, sample group, and sampleID (sentrixID+position)). Or am I reading the documentation wrong?

I am newer to using R for bioinformatics so I apologize for my ignorance in understanding this. Thanks for your help as always!

[Wanding Zhou - Bioinformatics]

Please use probe ID vector instead of SigDFs for testEnrichment. The probe ID vector can be from DML analysis. We are working on expanding the KYCG documentation. Please stay tuned.