Bioconductor 3.3 packages

Wrap up of new packages in the Bioconductor 3.3 release

Luke Zappia


May 3, 2016

Bioconductor 3.3 has just been released. You can find the complete list of new packages (and changes to existing packages) here but here are a few I thought might be interesting based on the description. I might have more to say once I’ve had time to try a few out.


These packages are specific to single-cell RNA-seq analysis. A couple of them I am already familiar with, particularly scater.

  • cellity - identifying low-quality cells
  • celTree - model the relationship between individual cells over time or space.
  • scater - tools for analysis of single-cell RNA-seq data (particularly QC)
  • scde - single-cell differential expression
  • scran - normalisation, cell-cycle assignment, gene detection