SummarizedExperiment
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rowData rownames issue explored at BioC2018
Here is a reproducing example for a potential issue in the devel branch version of SummarizedExperiment. It seems an inconsistency in rownames of rowData and rownames of the SE, which would prevent creation of an SE, is nevertheless allowed during rowData re-assignment.
https://gist.github.com/mikelove/8fb94c610b588d4a6a64848d3fcbdf76
We tried with SummarizedExperiment v1.11.5 (so use.names=TRUE is the default).
Thanks