I have just installed the current R development version to verify whether my package works on the newest R release and I've encountered an issue when combining RangedData/IRanges objects.
The RangedData doc says
Note that the use of ‘RangedData’ and ‘RangedDataList’ objects has
so I guess that everyone switch to GRanges now. In this case, could you output a deprecation warning somehow?
Thanks for clarification and best