This repository contains a little script to stage and upload all datasets in the scRNAseq package to the CollaboratorDB instance. For simplicity, we'll just consider the default state of each dataset, without the extra stuff like Ensembl and multi-part components.
The stage.R script does most of the work with respect to loading scRNAseq objects and preparing them for upload.
This is facilitated by run.sh to execute the staging inside a Slurm job.
The upload.R script then uploads it to CollaboratorDB (assuming appropriate permissions are given).