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  1. Replication_Rate_Snakemake Replication_Rate_Snakemake Public

    Snakemake workflow to calculate in vivo bacterial replication rates from single time point metagenomics sequencing

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  2. PUPpy PUPpy Public

    PUPpy is a fully automated computational pipeline to design taxon-specific primers, which can be used to detect and quantify substrain-level absolute microbial counts

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