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nfcore/rnaseq Installation

To start using the eQTL-Catalogue/rnaseq pipeline, there are three steps described below:

1) Install NextFlow

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.

2) Install the Pipeline

First clone the GitHub repository

git clone https://github.com/eQTL-Catalogue/rnaseq.git
cd rnaseq

nextflow run main.nf [...parameters...]