Assembly, binning and annotation of metagenomes
Type: Nextflow
Creators: Hadrien Gourlé, No author provided, Daniel Straub, Sabrina Krakau
Submitter: WorkflowHub Sandbox Bot
Assembly, binning and annotation of metagenomes.
Introduction
This pipeline is for assembly, binning and annotation of metagenomes. It supports both short and long reads, quality trims the reads and adapters with https://github.com/OpenGene/fastp and https://github.com/rrwick/Porechop and performs basic QC with https://www.bioinformatics.babraham.ac.uk/projects/fastqc/.
The pipeline then:
assigns taxonomy to reads using https://ccb.jhu.edu/software/centrifuge/ and/or https://ccb.jhu.edu/software/kraken2/ ...
Downloadnf-core/clinvap
Clinical Variant Annotation Pipeline
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 / singularity containers making installation trivial and results highly reproducible.
Documentation
The nf-core/clinvap pipeline comes with documentation about the pipeline, found in the docs/ directory:
Installation Pipeline configuration
Local installation Adding your own system ...
