covid19

Tutorials covering covid19

Material

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

Assembly

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

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 one-health

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
SARS-CoV-2 Viral Sample Alignment and Variant Visualization
covid19 gmod jbrowse1

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 one-health
Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
covid19 virology one-health

Contributors

This material was contributed to by:

Anton Nekrutenko avatar Anton Nekrutenkoorcid logoDaniel Blankenberg avatar Daniel BlankenbergBoris Depoortere avatar Boris Depoortereorcid logoNicola Soranzo avatar Nicola Soranzoorcid logoMarius van den Beek avatar Marius van den BeekMiguel Roncoroni avatar Miguel RoncoroniJasper Ouwerkerk avatar Jasper OuwerkerkKatherine Cox avatar Katherine CoxMélanie Pétéra avatar Mélanie PétéraCandace Savonen avatar Candace Savonenorcid logoDave Clements avatar Dave Clementsorcid logoTeresa Müller avatar Teresa Müllerorcid logoHelena Rasche avatar Helena RascheGildas Le Corguillé avatar Gildas Le CorguilléAdelaide Rhodes avatar Adelaide Rhodesorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoAnthony Bretaudeau avatar Anthony BretaudeauSimon Bray avatar Simon Brayorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-SolanoElizabeth Humphries avatar Elizabeth Humphriesorcid logoBérénice Batut avatar Bérénice Batutorcid logoMartin Čech avatar Martin Čechorcid logoArmin Dadras avatar Armin Dadrasorcid logoBjörn Grüning avatar Björn Grüningorcid logoBert Droesbeke avatar Bert Droesbekeorcid logoWolfgang Maier avatar Wolfgang MaierJon Trow avatar Jon TrowNatalie Kucher avatar Natalie KucherAva Hoffman avatar Ava HoffmanRobert Meller avatar Robert MellerFrederick Tan avatar Frederick Tan

Funding

These individuals or organisations provided funding support for the development of this resource

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UFR
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ELIXIR-CONVERGE
ELIXIR CONVERGE is connecting and align ELIXIR Nodes to deliver sustainable FAIR life-science data management services. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement № 871075
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de.NBI
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NHGRI GDS Community Network
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EuroScienceGateway
EuroScienceGateway was funded by the European Union programme Horizon Europe (HORIZON-INFRA-2021-EOSC-01-04) under grant agreement number 101057388 and by UK Research and Innovation (UKRI) under the UK government’s Horizon Europe funding guarantee grant number 10038963.
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NHGRI ANVIL
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BeYond-COVID
BY-COVID is an EC funded project that tackles the data challenges that can hinder effective pandemic response. This project has received funding from the European Union’s Horizon Europe research and innovation programme under grant agreement № 101046203 (BY-COVID)
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ELIXIR Europe