On 05/12/2017 02:05 AM, Garth Ilsley wrote:
Hello,
I am thinking of creating package for Bioconductor, and I am wondering about
the use of R6 classes (from the R6 package). I do indeed intend to use existing
Bioconductor classes such as SummarizedExperiment and interact and make use of
other Bioconductor packages, such as scater and DESeq2. This appears to be in
accordance with the guidelines
(https://www.bioconductor.org/developers/package-guidelines/#classes), but does
the use of R6 classes disqualify the package from being in Bioconductor? Do I
need to write my classes as S4 in order to qualify?
I think there's little value in exposing R6 classes to Bioconductor
users, introducing yet another syntax and semantics, and would strongly
discourage their use outside the package name space.
Inside the package name space the maintainer has more liberty to adopt
programming practices that are geared toward correct and efficient
implementations; if R6 fills this role (I'm not an expert, but I don't
think R6 enforces strong type checking and is not particularly
efficient) then it would be appropriate to use them.
Martin
Thank you for your help.
Best regards,
Garth
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