Aaron Lun

Nudge - any progress? Need help?

Just a heads up that, during the next release, I will be slowly removing some of the _tests_ related to the old **beachmat** API (not any functionality, just the tests)...

Sorry for the late reply; I don't add datasets personally any more, but I'm happy to take a PR if you want to have a go at contributing to this...

I think you should ask at https://github.com/alanocallaghan/scater.

See [here](https://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example) on creating a minimal reproducible example of your problem.

Probably something to hold off until BioC 3.6, I think. In many respects, it's a pretty straightforward conversion, based on my knowledge of both classes; but we've already made a...

There are also a bunch of other issues that should be addressed in this conversion: - We should consolidate `fpkmData` and `tpmData` and `cpmData` into a single entry, probably called...

On a related note, we should consider whether we should actually generate `exprs` in `newSCESet`. Many people are forgetting to call `normalize` after running `computeSumFactors` in the _scran_ workflow, and...

It is... possible, I suppose. The publication prerequisite exists because I don't want **scRNAseq** being the "source of truth" for the data; this is a job I would rather leave...

@dtm2451 did we decide what to do here?