Do we need cluster_sce()?

[jashapiro]

I just noted that there is already a function scran::clusterCells() which does almost everything we do with cluster_sce(), with the exception being saving the results back to a separate SCE object.

Since we can add the cluster info with a line like:

sce$clusters <- scran::clusterCells(
  sce, 
  use.dimred = "PCA", 
  BLUSPARAM=NNGraphParam(k=15)
)

are we sure we need our own version of the function?

[allyhawkins]

hmm probably not... do we want to take this out before we release?

[allyhawkins]

This function is only used in internal functions within the package and we don't use it in other places like scpca-downstream-analyses. Because of that, we will just remove it from being exported right now and go ahead and release. Later we can actually remove the function and switch to using scran::clusterCells().