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  1. PathoGenOmics-Lab/VIPERA PathoGenOmics-Lab/VIPERA Public

    A Snakemake workflow for SARS-CoV-2 Viral Intra-Patient Evolution Reporting and Analysis

    Python 4

  2. PathoGenOmics-Lab/tcfinder PathoGenOmics-Lab/tcfinder Public

    A lightweight tool to find clusters of samples within a phylogeny.

    Rust 1

  3. PathoGenOmics-Lab/transcluster PathoGenOmics-Lab/transcluster Public

    A Snakemake pipeline to find SARS-CoV-2 clusters in a reference phylogeny and estimate their transmission fitness

    Python 2