https://github.com/rrwick/Unicycler
docker build --no-cache -t collingswortht/unicycler -f DOCKER/UNICYCLER/Dockerfile-unicycler .
https://github.com/ruanjue/smartdenovo
docker build --no-cache -t collingswortht/smartdenovo -f DOCKER/SMARTDENOVO/Dockerfile-smartdenovo .
https://github.com/alekseyzimin/masurca/
docker build --no-cache -t collingswortht/masurca -f DOCKER/MASURCA/Dockerfile-masurca .
https://github.com/Gaius-Augustus/BRAKER
docker build --no-cache -t collingswortht/annotate -f DOCKER/ANNOTATE/annotate_dockerfile .
Collect read data (short reads, forward and reverse, as well as long reads "*.fastq.gz") and a reference fasta ("*.faa").
Place in "DATA/" directory and edit "*.nf" parameters.
nextflow run masurca_assemble-annotate.nf -c CONFIG/masurca.config