To start using the eQTL-Catalogue/rnaseq pipeline, there are three steps described below:
Nextflow runs on most POSIX systems (Linux, Mac OSX etc). It can be installed by running the following commands:
# Make sure that Java v7+ is installed:
java -version
# Install Nextflow
curl -fsSL get.nextflow.io | bash
# Add Nextflow binary to your PATH:
mv nextflow ~/bin/
# OR system-wide installation:
# sudo mv nextflow /usr/local/bin
You need NextFlow version >= 0.24 to run this pipeline.
See nextflow.io and NGI-NextflowDocs for further instructions on how to install and configure Nextflow.
First clone the GitHub repository
git clone https://github.com/eQTL-Catalogue/rnaseq.git
cd rnaseq
nextflow run main.nf [...parameters...]