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The nf-core project

introduction to the nf-core project and the existing pipelines
the nf-core project logo with project's mission explained in a sentence
© Wellcome Connecting Science

The nf-core project is a community-led effort to develop a set of curated, best-practice pipelines built using Nextflow

Pipelines developed for nf-core must follow strict guidelines. These include using the nf-core template, standardised parameters, such as input formats, high quality documentation outlining inputs, parameters and outputs and test datasets that can be used when testing any nf-core pipeline on a new system. Each pipeline release is version controlled, meaning that the same software tools and versions are used ensuring reproducibility.

There are currently over 80 pipelines available through nf-core and these include pipelines for downloading fastq files from the European Nucleotide Archive or Short Read Archive (fetchngs), RNA-seq analysis (rnaseq) and metagenomics (mag). Help and advice on running nf-core pipelines can be found in a number of different community forums including a vibrant slack channel. Now that we’ve introduced you to nf-core, we can start preparing to run one of their pipelines, viralrecon. In the next section, we’re going to cover installing Nextflow and Singularity (a containerisation tool) on your system.

Note: nf-core is licensed under the MIT licence
© Wellcome Connecting Science
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