Bioinformatics pipelines, built for agri-ecology.
Eco-Flow is a community of computational agri-ecologists. We build reproducible, open Nextflow pipelines, teach the skills to run them, and grow a UK network of pipeline developers.
Closing the omics gap in ecology
Agri-ecology research is critical for understanding the natural environment and securing our food supply — yet its tooling lags behind fields like medicine. We build the bridges, so research is reproducible, accessible and scalable.
Building
We develop reproducible, easy-to-use, modular bioinformatics pipelines for the analyses ecologists need — built with Nextflow and the nf-core framework.
Testing
Every module gets unit testing with nf-test, plus end-to-end pipeline tests with example data, so pipelines stay active, reliable and relevant.
Training
We bridge ecology and bioinformatics — empowering researchers to access and run cutting-edge analyses themselves. No more black box.
Community
We grow a UK community of pipeline developers through networking events and hackathons, because development should be collaborative and accessible.
Featured pipelines
Open, tested and documented Nextflow workflows — hosted on Eco-Flow and nf-core.
Automated gene family expansion & contraction analysis with CAFE5, plus GO enrichment.
Compare gene macrosynteny between chromosome-level genome assemblies.
Process and annotate nanopore metabarcoding data across taxonomic levels.
Process pollen metabarcoding data with VSEARCH and assign species to barcodes.
Assess genome assembly and annotation quality with an ensuite of tools, plus phylogeny.
Conduct genome-wide association studies (GWAS) with plink.
Latest news & events
A fresh look for Eco-Flow
We've given the Eco-Flow website a complete redesign — easier to navigate, mobile-friendly, and built to grow with the project.
nf-core hackathon London
Blog post related to the nf-core hackathon we hosted in London in 2026.
nf-core hackathon Barcelona
Blog post related to the nf-core hackathon in Barcelona in October 2025.
Want us to build a pipeline with you?
We're accepting expressions of interest. Tell us about your project and we'll get back to you as soon as we can.
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