SARS-CoV-2

Tutorials covering analysis of SARS-CoV-2 (COVID 19)

You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides () and tutorial () buttons below.

Material

Assembly

Lesson Slides Hands-on Recordings Input dataset Workflows
Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
covid19

    • Computational chemistry

    Lesson Slides Hands-on Recordings Input dataset Workflows
    Virtual screening of the SARS-CoV-2 main protease with rxDock and pose scoring
    covid19

    Using Galaxy and Managing your Data

    Lesson Slides Hands-on Recordings Input dataset Workflows
    Automating Galaxy workflows using the command line
    workflows variant-analysis covid19
    • SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis
    ncbi covid19
    • Submitting sequence data to ENA
    covid19

    Sequence analysis

    Lesson Slides Hands-on Recordings Input dataset Workflows
    Removal of human reads from SARS-CoV-2 sequencing data
    covid19

    • Variant Analysis

    Lesson Slides Hands-on Recordings Input dataset Workflows
    From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis
    covid19 virology
    Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
    covid19 virology

    • Galaxy instances

    You can use a public Galaxy instance which has been tested for the availability of the used tools. They are listed along with the tutorials above.

    Maintainers

    This material is maintained by:

    orcid logoAvatarWolfgang Maier

    For any question related to this topic and the content, you can contact them or visit our Gitter channel.

    Contributors

    This material was contributed to by:

    AvatarMarius van den Beekorcid logoAvatarBérénice Batutorcid logoAvatarWolfgang MaierAvatarAdelaide RhodesAvatarAnton Nekrutenkoorcid logoAvatarBert DroesbekeAvatarSimon BrayAvatarMiguel Roncoroniorcid logoAvatarDaniel BlankenbergAvatarJon Troworcid logoAvatarDave Clements