Introduction

Plott is a Nextflow pipeline for genomic analysis.

Installation

conda env create -f environment.yml
conda activate plott

Usage

download sketch for homopolish

bash scripts/fetch_mash_sketches.sh -o /path/to/dir

run the assembly pipeline

nextflow run main.nf --long_reads /path/to/nanopore.fq --sketches /path/to/mash/sketch --out_dir /path/to/outdir -resume