Converts an arbitrary object into one that works in the facile ecosystem.

There will be many times when the particular analysis you want to conduct is not well supported in the facileverse. In this case, we will endeavor to implement ways for you to take these results and bring them back into the facile ecosystem so that you can benefit from the interactivity provided therein.

facilitate(x, ...)

Arguments

x	A non-facile object that we want to bring into the facile ecosystem
...	we're going to need a lot of flexibility in the implementation of this function for different types of analyses

Value

A facile-subclass of x that can take advantage of the interactive facile ecosystem.

Details

We'll want to define facilitate() over a wide variety of objects. For instance:

• facilitate(a_DGElist) would convert an edgeR::DGEList() object into a FacileDGEList, which is just the same DGEList that implements the FacileData API. This is a work in progress and will be implemented in the FacileBioc package.

• You might perform a differential expression analysis using standard a standard limma pipeline, but you'll want to be able to drop this result into the facile ecosystem provided in the FacileAnalysis package. The particulars of this faciltate() implementation would be defined in the FacileAnalysis package, and migth look something like this:

  fit <- eBayes(lmFit(elist, design))
  limma.res <- topTable(fit, coef = "something", n = Inf)
  facile.res <- facilitate(elist, fit, limma.res)
  

It's not clear how well well we'll be able to do this, or if this is even the right way to do it, but we'll need to do something.

See also

https://github.com/facilebio/FacileBiocData