BeYond-COVID
Learn about viral pathogen data analysis with Galaxy. Content here has been developed over the course of the COVID-19 pandemic and to a large part under the umbrella of the BY-COVID project as explained in a recent blog post.
Work through the material at your own pace. If you need support contact us via the Slack Channel #gta_BY-COVID.
| Organisers(s) |
 
Wolfgang Maier
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| Instructor(s) |
Anna Syme
Björn Grüning
Gareth Price
Igor Makunin
Matee Ullah
Wolfgang Maier
|
Need help with these tutorials?
Open Slack support channel for this track: comment #gta_BY-COVIDViral genomes sequencing data analysis
Here you find three hands-on tutorials demonstrating sequencing data analysis with Galaxy for three, rather different viral pathogens in increasing order of analysis complexity. Feel free to work through all three of them or just pick the one covering the virus you are most interested in, but consider watching first the introductory video, which explains some of the particularities of each virus and the corresponding analysis challenges.
SARS-CoV-2 genome surveillance system
Learn about how to scale up your Galaxy-based viral sequencing data analysis to batches of samples and how to automate the processing of such batches for highest sample throughput. Watch the introductory video for an overview of the contents of this section and how the pieces are connected.
| Lesson | Slides | Hands-on | Recordings |
|---|---|---|---|
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An automated SARS-CoV-2 genome surveillance system built around Galaxy |
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| Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data | |||
| Automating Galaxy workflows using the command line | |||