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## Analysis Workflow for Cut&Tag experiment
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This Snakemake template is inspired from https://github.com/maxsonBraunLab/cutTag-pipeline
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It used a specific peak caller for Cut&Tag: [gopeaks](https://github.com/maxsonBraunLab/gopeaks) and published in [Genome Biol](https://doi.org/10.1186/s13059-022-02707-w)


## TODO

- Markdup?
- Mapping quality filtering? Not done in `gopeaks` AFAIK