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@theiagen

Theiagen Genomics

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  1. public_health_bioinformatics public_health_bioinformatics Public

    Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.

    WDL 61 25

  2. public_health_viral_genomics public_health_viral_genomics Public

    Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially SARS-CoV-2

    WDL 42 17

  3. public_health_bacterial_genomics public_health_bacterial_genomics Public

    WDL 27 13

Repositories

Showing 10 of 52 repositories
  • public_health_bioinformatics Public

    Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.

    theiagen/public_health_bioinformatics’s past year of commit activity
    WDL 61 GPL-3.0 25 34 7 Updated Mar 6, 2026
  • utilities Public

    A collection of general utility scripts

    theiagen/utilities’s past year of commit activity
    Python 1 AGPL-3.0 0 0 2 Updated Mar 6, 2026
  • tbp-parser Public

    A TBProfiler output parser used to classify the severity of Mycobacterium tuberculosis mutations.

    theiagen/tbp-parser’s past year of commit activity
    Python 6 GPL-3.0 0 1 1 Updated Mar 5, 2026
  • nocasim Public

    Generates realistic paired-end FASTQ from simulated hybrid capture enrichment of Norovirus VP1, calibrated from empirical data in Bhamidipati et al. (2025) Sci Rep 15:20526.

    theiagen/nocasim’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Mar 4, 2026
  • theiagen_docker_builds Public
    theiagen/theiagen_docker_builds’s past year of commit activity
    Dockerfile 3 GPL-3.0 0 1 3 Updated Mar 3, 2026
  • theiavalidate Public

    A Python tool to compare the contents of two tab-delimited files.

    theiagen/theiavalidate’s past year of commit activity
    Python 2 GPL-3.0 1 1 1 Updated Dec 3, 2025
  • test-datasets Public Forked from nf-core/test-datasets

    Test data to be used for automated testing with the nf-core pipelines

    theiagen/test-datasets’s past year of commit activity
    0 MIT 465 0 0 Updated Dec 2, 2025
  • theiaphylo Public

    A collection of python-based phylogenetic analysis and comparison tools

    theiagen/theiaphylo’s past year of commit activity
    Python 1 GPL-3.0 0 2 0 Updated Nov 13, 2025
  • docker-builds Public Forked from StaPH-B/docker-builds

    📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

    theiagen/docker-builds’s past year of commit activity
    Dockerfile 0 GPL-3.0 137 0 0 Updated Nov 5, 2025
  • tree_nine Public Forked from aofarrel/tree_nine

    Put diff files on an existing phylo tree using UShER and taxonium tools.

    theiagen/tree_nine’s past year of commit activity
    Python 0 MIT 3 0 0 Updated Nov 5, 2025
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