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pmenzel authored Aug 10, 2022
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A snakemake-wrapper for evaluating *de novo* bacterial genome assemblies, e.g. from Oxford Nanopore (ONT) or Illumina sequencing.

See the preprint here: [Snakemake Workflows for Long-read Bacterial Genome Assembly and Evaluation, Preprints.org 2022](https://www.preprints.org/manuscript/202208.0191/v1)

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
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