RNA-seq analysis pipeline for detection gene-fusions
Switch branches/tags
Clone or download
Pull request Compare This branch is 29 commits ahead, 1 commit behind SciLifeLab:master.
Latest commit 8e8ea66 Oct 5, 2018



Attempt at setting up a pipeline for fusion detection as an addon to the previously existing nf-core/rnaseq pipeline.

Build Status Nextflow

install with bioconda Docker Singularity Container available


The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker / singularity containers making installation trivial and results highly reproducible.


The nf-core/rnafusion pipeline comes with documentation about the pipeline, found in the docs/ directory:

  1. Installation
  2. Pipeline configuration
  3. Running the pipeline
  4. Output and how to interpret the results
  5. Troubleshooting