Compare the quality of multiple genomes, along with their annotations.

A Nextflow pipeline for running synteny analysis.

Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq

A fully reproducible and state-of-the-art ancient DNA analysis pipeline

Python package with helper tools for the nf-core community.

Aggregate results from bioinformatics analyses across many samples into a single report.

Repository to host tool-specific module files for the Nextflow DSL2 community!

Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data

A pipeline to measure gene family expansion and contraction

A repository to run training courses

R package providing query functionality to BioMart instances like Ensembl

A pipeline developled in collaboration with Exeter University

Simple test framework for Nextflow pipelines

Phylogenetic orthology inference for comparative genomics

The developer platform for on-demand cloud development environments to create software faster and more securely.

Nextflow DSL2 pipeline to generate a Genome Note, including assembly statistics, quality metrics, and Hi-C contact maps. This workflow is part of the Tree of Life production suite.

A DSL for data-driven computational pipelines

Nextflow pipeline for hyperparameter optimization of machine learning models

Nextflow training material

Download data using python script

A collection of unexpected challenges and learnings with nextflow and nf-core.

circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data

Useful bash one-liners for bioinformatics.

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

Pipeline to fetch metadata and raw FastQ files from public databases