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Public Health Alliance for Genomic Epidemiology

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  1. hAMRonization hAMRonization Public

    Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure

    Python 144 30

  2. pipeline-resources pipeline-resources Public

    Bioinformatics Pipeline and Visualization resources

    55 30

  3. SARS-CoV-2-Contextual-Data-Specification SARS-CoV-2-Contextual-Data-Specification Public

    Collection template and associated materials for SARS-CoV-2 metadata

    35 9

  4. hAMRonization_workflow hAMRonization_workflow Public

    Harmonization of AMR predictor tool outputs

    Python 21 9

  5. pha4ge.github.io pha4ge.github.io Public

    Static website for the PH4AGE alliance

    13 2

  6. public-health-pipeline-best-practices public-health-pipeline-best-practices Public

    13 4

Repositories

Showing 10 of 17 repositories
  • infrastructure-resources Public

    Infrastructure resources

    pha4ge/infrastructure-resources’s past year of commit activity
    1 Apache-2.0 1 0 0 Updated Dec 19, 2024
  • wastewater-guidance Public
    pha4ge/wastewater-guidance’s past year of commit activity
    1 Apache-2.0 0 0 0 Updated Nov 19, 2024
  • HPAI_Contextual_Data_Specification Public Forked from cidgoh/HPAI_Contextual_Data_Specification

    This data specification harmonizes contextual data to support H5N1 monitoring with PHA4GE. It provides standardized, ontology-based fields and terms for comprehensive surveillance. Users can implement it via their preferred tools, including DataHarmonizer. Field and reference guides, along with curation and new term request SOPs, support its use.

    pha4ge/HPAI_Contextual_Data_Specification’s past year of commit activity
    0 1 0 0 Updated Oct 16, 2024
  • Wastewater_Contextual_Data_Specification Public Forked from cidgoh/Wastewater_Contextual_Data_Specification

    A data specification for harmonizing Wastewater pathogen genomics contextual data. The specification provides standardized (ontology-based) fields and terms which are implemented via metadata template(s), supported by field and reference guides as well as different curation and new term request SOPs.

    pha4ge/Wastewater_Contextual_Data_Specification’s past year of commit activity
    5 MIT 1 0 0 Updated Oct 8, 2024
  • primaschema Public Forked from bede/primaschema

    Infrastructure for tiled amplicon PCR primer scheme definitions

    pha4ge/primaschema’s past year of commit activity
    Python 1 MIT 5 18 0 Updated Sep 18, 2024
  • primer-schemes Public

    Tiling PCR primer scheme definitions

    pha4ge/primer-schemes’s past year of commit activity
    10 CC-BY-4.0 4 15 1 Updated Sep 4, 2024
  • pipeline-resources Public

    Bioinformatics Pipeline and Visualization resources

    pha4ge/pipeline-resources’s past year of commit activity
    55 Apache-2.0 30 16 (1 issue needs help) 0 Updated Aug 30, 2024
  • convAST Public
    pha4ge/convAST’s past year of commit activity
    Python 1 MIT 4 1 0 Updated Aug 22, 2024
  • hAMRonization Public

    Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure

    pha4ge/hAMRonization’s past year of commit activity
    Python 144 LGPL-3.0 30 9 (1 issue needs help) 3 Updated Aug 8, 2024
  • public-health-pipeline-best-practices Public
    pha4ge/public-health-pipeline-best-practices’s past year of commit activity
    13 4 2 0 Updated Mar 25, 2024
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