Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

Assembly and binning of metagenomes

Bioinformatics Tools

Simple test framework for Nextflow pipelines

Nextflow training material

Nextflow wrapper built around nf-core/modules

A curated collection of Nextflow implementation patterns

Example Nextflow pipelines and programming techniques

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

Pipeline to fetch metadata and raw FastQ files from public and private databases

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

Workflow management with Nextflow and nf-core

A demonstration of how to work reproducibly using version control, containers, and a workflow manager.

Bioinformatics pipeline for analysis of amplicon sequencing of tick-associated microbes

Collection of bioinformatics training materials

A flexible pipeline for complete analysis of bacterial genomes

Nextflow readmapping pipeline, part of the Tree of Life production suite.

A nf-test getting-started guide.

Code and files for the main nf-core website.

NBIS/ELIXIR course: Tools for Reproducible Research

Query files for their type and compression state.

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

Workshop • Intro to Bioinformatics using NGS data • 5 days