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1. pha4ge/hAMRonization pha4ge/hAMRonization Public

   Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure

   Python 173 34

2. arpcard/rgi arpcard/rgi Public

   Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.

   Python 401 84

3. etetoolkit/ete etetoolkit/ete Public

   Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the …

   Python 862 224

4. evolving_threat_detector evolving_threat_detector Public

   Identifying changes in resistome relative to closest relatives and contextualising results

   Python 1

5. parKour parKour Public

   Paired Arrangement of Reads via Kmeans On Unlabelled RNA-Seq

   C++

6. cov-lineages/pangolin cov-lineages/pangolin Public

   Software package for assigning SARS-CoV-2 genome sequences to global lineages.

   Python 446 107