Aim
Analyse 10x Genomics* single cell RNA-Seq data.
*Note: this workflow can be adapted to work with scRNA-Seq datasets generated by other sequencing technologies than 10x Genomics.
Requirements
A HPC account. If you do not have one, please request one here.
Nextflow installed on your HPC home account. If you haven’t already installed Nextflow, do so by following the guide here.
Your scRNA-Seq data (fastq files) are on the HPC. If you are having difficulties transferring them to the HPC, submit a support ticket here.