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Wellcome Connecting Science

We have open courses from discovery research based on genomic technologies, to the application of genomics in healthcare and public health.
README.md

Wellcome Connecting Science GitHub HomePage

About Us

Welcome to the Wellcome Connecting Science GitHub repository! We have open courses from discovery research based on genomic technologies, to the application of genomics in healthcare and public health. All course data in these repositories are free for reuse with attribution.

Interested in attending a course?

Take a look at what courses are coming up at Wellcome Connecting Science Courses & Conference Website.

Course Repositories

The latest course repositories can be found here Wellcome Connecting Science Courses Index.

The course repositories contain the following:

  • Course materials including lecture notes, slides, and datasets.
  • Code examples and scripts for bioinformatics and genomic analyses.
  • Tutorials and practical exercises to complement the courses.

We have developed dedicated landing pages for courses that are offered regularly. These pages consolidate all pertinent materials and updates, facilitating easier access to content for both participants and educators. You can find the course landing pages linked below on the homepage and in the Wellcome Connecting Science Courses Index.

Course Informatics Set-up

We primarily use Oracle VirtualBox for our informatics courses as it is open-source, cross-platform, and enables participants to seamlessly replicate the software environment after the course. For those who prefer a containerized setup, we also have started providing support for Docker containers.

For installation and setup, please refer to the following guides:

  • Oracle VM VirtualBox Installation Guide – Detailed instructions for installing and configuring VirtualBox on different operating systems. (Note: Separate installations are needed for Intel-based and ARM-based Macs, and the VDI files will differ.)
  • Docker Installation Guide – Step-by-step guide for installing Docker on Windows, macOS, and Linux.

In virtual courses, we often use browser-based tools or Google Colab, allowing participants to run code without local installations. For more details, please refer to our Google Colab Guide.

Most of the bioinformatics software covered in our course operates mainly on Linux operating systems, here is a list of useful resources for Linux Learning.

Citing and Re-using Course Material

The course data are free to reuse and adapt with appropriate attribution. All course data in these repositories are licensed under the Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0). Creative Commons Licence

Each course landing page is assigned a DOI via Zenodo, providing a stable and citable reference. These DOIs can be found on the respective course landing pages and can be included in CVs or research publications, offering a professional record of the course contributions.

For more information or queries, feel free to contact us via the Wellcome Connecting Science website.
Find us on socials Wellcome Connecting Science Linktr

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  1. Association_Studies Association_Studies Public

    This is the landing page for Genetic Analysis of Population-based Association Studies Course.

    HTML 1 1

  2. Polygenic_Risk_Scores Polygenic_Risk_Scores Public

    This is a landing page for the Polygenic Risk Scores Course Developed and Delivered by Wellcome Connecting Science

    Shell 2

  3. Single_Cell_Genomics Single_Cell_Genomics Public

    This is the landing page for single cell genomics course

    Jupyter Notebook 6

  4. Molecular_Approaches_Clinical_Microbiology Molecular_Approaches_Clinical_Microbiology Public

    This is the landing page for Molecular & Genomic Approaches to Clinical Microbiology Course.

    R 5

  5. CRISPR CRISPR Public

    New programme of virtual and in-person courses on CRISPR and related technologies

    Jupyter Notebook 4

  6. GenEpi_Bacterial_Pathogen GenEpi_Bacterial_Pathogen Public

    Learn how to apply genomics to epidemiological surveillance of bacterial pathogens.

    HTML 1

Repositories

Showing 10 of 78 repositories
  • Cancer_Genome_Analysis Public

    Learn to analyse genomics data from cancer samples with hands-on practical exercises in mutation calling, driver gene identification, mutational signature analysis and RNA deconvolution.

    WCSCourses/Cancer_Genome_Analysis’s past year of commit activity
    HTML 0 0 0 0 Updated Dec 23, 2024
  • Cancer_Genome_Analysis_2023 Public

    Learn to analyse genomics data from cancer samples with hands-on practical exercises in mutation calling, driver gene identification, mutational signature analysis and RNA deconvolution.

    WCSCourses/Cancer_Genome_Analysis_2023’s past year of commit activity
    HTML 3 1 0 0 Updated Dec 23, 2024
  • NGS_Bioinformatics_2025 Public Forked from WCSCourses/NGS_Bioinformatics

    Hands-on lab and informatics training for long and short read sequencing

    WCSCourses/NGS_Bioinformatics_2025’s past year of commit activity
    Jupyter Notebook 0 4 0 0 Updated Dec 23, 2024
  • NGS_Bioinformatics_2024 Public archive Forked from WCSCourses/NGS_Bioinformatics

    Learn to analyse next generation sequence data to address a wide range of biological questions

    WCSCourses/NGS_Bioinformatics_2024’s past year of commit activity
    TeX 5 4 0 0 Updated Dec 23, 2024
  • NGS_Bioinformatics Public

    Learn to analyse next generation sequence data to address a wide range of biological questions

    WCSCourses/NGS_Bioinformatics’s past year of commit activity
    TeX 0 4 0 0 Updated Dec 23, 2024
  • GCM_2025 Public Forked from WCSCourses/Genomics_and_Clinical_Microbiology

    Training in molecular and genomic techniques for microbiological diagnostics and infection epidemiology

    WCSCourses/GCM_2025’s past year of commit activity
    0 3 0 0 Updated Dec 23, 2024
  • AMR_2025 Public Forked from WCSCourses/AMR_Bacterial_Pathogens

    Learn antimicrobial susceptibility testing techniques and how whole-genome sequencing and bioinformatics can be used to understand AMR

    WCSCourses/AMR_2025’s past year of commit activity
    Shell 0 3 0 0 Updated Dec 20, 2024
  • COG-Train_Resources Public

    cogtrain_resources

    WCSCourses/COG-Train_Resources’s past year of commit activity
    HTML 4 6 0 0 Updated Dec 17, 2024
  • Single_Cell_Genomics_ImmuneSys_24 Public Forked from WCSCourses/Single_Cell_Genomics

    Master the application of single-cell genomic approaches to explore the immune system.

    WCSCourses/Single_Cell_Genomics_ImmuneSys_24’s past year of commit activity
    Jupyter Notebook 0 6 0 0 Updated Nov 21, 2024
  • GCV_2025 Public Forked from WCSCourses/Genomics_and_Clinical_Virology

    Master cutting-edge genomics and bioinformatics approaches to advance viral diagnostics and investigation

    WCSCourses/GCV_2025’s past year of commit activity
    HTML 0 2 0 0 Updated Nov 18, 2024
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