nf-core hackathon Boston

Eco-flow were excited to join the nf-core hackathon in Boston, where we proposed a new pipeline: nf-gwas

What is GWAS?

Genome-Wide Association Studies (GWAS) identify genetic variants associated with traits or diseases by testing millions of genetic markers across the genome in large populations. The nf-core/gwas pipeline aims to standardize and streamline this analysis workflow, making it reproducible and accessible to researchers.

During the hackathon, our team worked on several key components:

Quality control modules: Implementing robust filtering and QC steps for genotype data Visualization: Adding Manhattan plots and QQ plots for results interpretation Documentation: Writing user guides and parameter descriptions

Current Status

While we didn’t complete a first release during the hackathon, we made substantial progress. Trying to adapt the pipeline to all the needs of the community set us back, so we need to work in future to decide what is the best route to get this pipeline up and running!

The pipeline is in active development, and we’re working with the nf-core community to address reviewer feedback and move toward an initial release.

What’s Next?

We’re committed to continuing our contributions to nf-core/gwas and hope to see it reach a stable v1.0 release soon. The collaborative spirit of the nf-core hackathon was inspiring, and we’re grateful for the opportunity to contribute to open-source bioinformatics infrastructure. If you’re interested in GWAS analysis or want to contribute to the pipeline, check out the GitHub repository and join the discussion in Slack!