RNAseq (human)

We are currently configuring an RNAseq analysis pipeline to run on UCT's high performance cluster (hex). The pipeline was developed by Phil Ewels and Rickard Hammarén at National Genomics Infrastructure (NGI), Sweden using Nextflow (a bioinformatics workflow tool), docker and singularity containers, resulting in a portable, reproducible scientific workflow.

The pipeline accepts raw data in .fastq format. The main steps include: