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:

Robert Meller avatar Robert Mellerorcid logoBérénice Batut avatar Bérénice BatutAnton Nekrutenko avatar Anton Nekrutenkoorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-SolanoAdelaide Rhodes avatar Adelaide Rhodesorcid logoMartin Čech avatar Martin Čechorcid logoWolfgang Maier avatar Wolfgang Maierorcid logoArmin Dadras avatar Armin Dadrasorcid logoTeresa Müller avatar Teresa Müllerorcid logoNicola Soranzo avatar Nicola SoranzoSimon Bray avatar Simon BrayAva Hoffman avatar Ava HoffmanJon Trow avatar Jon Troworcid logoDave Clements avatar Dave ClementsMélanie Petera avatar Mélanie Peteraorcid logoHelena Rasche avatar Helena RascheKatherine Cox avatar Katherine CoxElizabeth Humphries avatar Elizabeth HumphriesNatalie Kucher avatar Natalie KucherGildas Le Corguillé avatar Gildas Le Corguilléorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoBert Droesbeke avatar Bert DroesbekeCandace Savonen avatar Candace SavonenBoris Depoortere avatar Boris Depoortereorcid logoBjörn Grüning avatar Björn GrüningMiguel Roncoroni avatar Miguel RoncoroniMarius van den Beek avatar Marius van den Beekorcid logoDaniel Blankenberg avatar Daniel BlankenbergJasper Ouwerkerk avatar Jasper Ouwerkerkorcid logoAnthony Bretaudeau avatar Anthony BretaudeauFrederick 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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NHGRI ANVIL
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ELIXIR Europe
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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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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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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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de.NBI
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NHGRI GDS Community Network