Integrated microbiome sequencing data analysis with nf-core

Metagenomics, a common sequencing method used in microbiome research, refers totechniques that aim to simultaneously analyse the DNA from all organisms in a sample. Giventhe ever-growing size of microbiome sequencing datasets needed to address ecologicalquestions, and the need to compare against a large number of genomes, Nextflow is an idealframework for building scalable and computationally efficient pipelines. One reason for thecurrent popularity of Nextflow within bioinformatics is the nf-core initiative, which aims to buildcommunity-based, software-development best-practices and (bio)informatic pipelines written inthe workflow manager language Nextflow. This poster will introduce the nf-core offerings of community-developed pipelines formetagenomics. Of these, I will highlight on pipelines for metagenomic taxonomic profiling(nf-core/taxprofiler), metagenomic de novo assembly (nf-core/mag), and screening forantimicrobial resistance and natural product genes (nf-core/funcscan). I will also show howthese pipelines fit in the wider nf-core ecosystem, and how they can be utilised together forscientists in microbial ecology, microbiome research, and even ancient DNA.