# score-assemblies A Snakemake-wrapper for evaluating *de novo* bacterial genome assemblies, e.g. from Oxford Nanopore (ONT) or Illumina sequencing. The workflow includes the following programs: * [pomoxis](https://github.com/nanoporetech/pomoxis) assess_assembly and assess_homopolymers * dnadiff from the [mummer](https://mummer4.github.io/index.html) package * [NucDiff](https://github.com/uio-cels/NucDiff/) * [QUAST](http://quast.sourceforge.net/quast) * [BUSCO](https://busco.ezlab.org/) * [ideel](https://github.com/mw55309/ideel/), which uses [prodigal](https://github.com/hyattpd/Prodigal) and [diamond](https://github.com/bbuchfink/diamond) * [bakta](https://github.com/oschwengers/bakta)