Cannot use estimate.hyper() with dplyr/plyr conflict
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CinchBlue commented
In plyr, group_by(gene) fails to give a table with the gene column preserved.
In dplyr, it does preserve the column.
Other packages that run a process with R and dplyr and plyr both loaded will most likely conflict without the direct namespace reference (e.g. a Shiny app that wants to use both the Monocle and DeLorean package will cause problems).
JohnReid commented
Thanks for pointing this out. I've been trying to eliminate dplyr/plyr conflicts by explicitly referencing the correct namespace. I've obviously yet to catch them all. Please let me know if you find any more issues. John.