De novo assembly pipeline for 10X linked-reads, used at the SciLifeLab National Genomics Infrastructure.

Hybrid genome assembly.

Introduction

The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker containers making installation trivial and results highly reproducible.

Documentation

The nf-core/denovohybrid pipeline comes with documentation about the pipeline, found in the docs/ directory:

Installation Pipeline configuration

Local installation Adding your own system config Reference genomes

Running the ...