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@typhoidgenomics

Global Typhoid Genomics Consortium

README.md

Global Typhoid Genomics Consortium

This is the home of the Global Typhoid Genomics Consortium on github

Consortium goals are to:

  • Encourage prompt sharing of typhoid genome data for public health benefit
  • Facilitate the extraction and reporting of key data of public health relevance
  • Promote and facilitate the dissemination and use of information derived from typhoid genomic data to monitor antimicrobial resistance and post-vaccination impact

For more info or to join the Consortium (membership is open to all) - see here for more info.

Tools and resources

Working Group 1: 21-years of Typhoid Genomics - Epidemiology and Descriptive Stats

Working Group 2: 21-years of Typhoid Genomics - Phylodynamics

  • Paper and analysis is in development

Working Group 3: Typhi Mykrobe implementation

Other resources

  • Typhi Pathogenwatch (described in this paper) - Analyse your own Typhi genomes, and interactively explore public genomes curated by the Consortium

Popular repositories Loading

  1. genotyphi genotyphi Public

    Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)

    Python 22 10

  2. TyphiNET TyphiNET Public

    TyphiNET online Salmonella Typhi AMR surveillance dashboard.

    JavaScript 7 3

  3. TyphoidGenomicsConsortiumWG1 TyphoidGenomicsConsortiumWG1 Public

    HTML 1 2

  4. .github .github Public

  5. scripts scripts Public

  6. TyphoidGenomicsConsortiumMykrobe TyphoidGenomicsConsortiumMykrobe Public

    HTML

Repositories

Showing 6 of 6 repositories
  • TyphoidGenomicsConsortiumMykrobe Public
    typhoidgenomics/TyphoidGenomicsConsortiumMykrobe’s past year of commit activity
    HTML 0 0 0 0 Updated Jun 19, 2024
  • TyphiNET Public

    TyphiNET online Salmonella Typhi AMR surveillance dashboard.

    typhoidgenomics/TyphiNET’s past year of commit activity
    JavaScript 7 GPL-3.0 3 0 0 Updated May 14, 2024
  • genotyphi Public

    Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)

    typhoidgenomics/genotyphi’s past year of commit activity
    Python 22 GPL-3.0 10 0 4 Updated May 10, 2024
  • .github Public
    typhoidgenomics/.github’s past year of commit activity
    0 0 0 0 Updated Feb 7, 2024
  • TyphoidGenomicsConsortiumWG1 Public
    typhoidgenomics/TyphoidGenomicsConsortiumWG1’s past year of commit activity
    HTML 1 GPL-3.0 2 0 0 Updated Sep 22, 2023
  • scripts Public
    typhoidgenomics/scripts’s past year of commit activity
    0 0 0 0 Updated Aug 12, 2023

People

This organization has no public members. You must be a member to see who’s a part of this organization.

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