[BioC] deepSNV error

[Dario Strbenac]

Hello,

The error message is clear. You need to provide a GRanges or data.frame variable for the regions of interest. If you read about exonsBy by opening the help page using ?exonsBy, you will see the returned variable is a GRangesList. Changing it to regions = gr[[1]] would test each exon of the first transcript in the GRangesList.
  
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 Dario Strbenac
 PhD Student
 University of Sydney
 Camperdown NSW 2050
 Australia