Introduction

During this training we will establish fundamental ideas and skills that are essential for using Nextflow and customizing the execution of an nf-core pipeline.

We will start the session discussing the core features of Nextflow and learning the fundamental commands and options for executing pipelines. Next, we will learn the core features of nf-core and its tooling. This knowledge will be applied as we learn the structure of the nf-core demo pipeline and how to customise its execution.

Create a new working directory

It is good practice to organise projects into their own folders to make it easier to track and replicate experiments over time.

Start by creating a new directory for all of today’s activities and move into it:

mkdir ~/training && cd $_