When I tried to run the GPLearn command with my expression set it gives me an error model <- GPLearn(MyExpressionSet, TF="ENSMUSG00000001300", useGpdisim=TRUE, quiet=TRUE) "Error in yvar[[1]] :subscript out of bounds". Please advise [[alternative HTML version deleted]]

Dear Anisha, GPLearn function expects the data (your MyExpressionSet) to be an ExpressionTimeSeries object that you can create using functions processData() or processRawData(). Can you please make sure you are passing it the correct kind of object, as a wrong kind of object could cause an error like you describe? Furthermore, in your example you specify a model with a regulating TF but no targets. You should add some targets to get a sensible model. For screening candidate targets GPRankTargets() provides an easier option than GPLearn(). Thanks a lot for your report, I will update the package to make the error message more informative! Antti On 2014-02-05 21:47 , Solanki, Anisha wrote: > > When I tried to run the GPLearn command with my expression set it gives me an error > > model <- GPLearn(MyExpressionSet, TF="ENSMUSG00000001300", useGpdisim=TRUE, quiet=TRUE) > > "Error in yvar[[1]] :subscript out of bounds". > > Please advise > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Antti Honkela antti.honkela at hiit.fi - http://www.hiit.fi/u/ahonkela/