Hello Everyone

I am building a package for data visualization. It basically just take a data frame and plot genes based on dominance features across variables (Proteins, Tissues, etc). Nevertheless, I am do not require any Bioconductor package for this given that most of the functions are being built with base R and dplyr. Is this a problem by the time I submit the package? It doesn't mean the package can't work with data or structures from other packages.

That being said, if I use an example using packages like summarizedexperiment, can I overcome that limitation for the package to be in Bioconductor?

Any advice would be appreciated!

Thank you.

Ideally you would have S4 methods that dispatch on the incoming data structure, so people could call your main function using a data.frame or a SummarizedExperiment, and the data would be processed correctly depending on what object type was used. The whole idea of Bioconductor is to provide objects that encapsulate data in a more efficient manner but that are easily manipulated as if they were simpler objects (e.g., you can do object[<subsetting vector>,] with a SummarizedExperiment and it will subset as if it were a data.frame while correctly subsetting the internal structures, and the end user doesn't need to know anything about that).