SARS-CoV-2

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

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Material

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

Computational chemistry

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

Using Galaxy and Managing your Data

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

Sequence analysis

Lesson Slides Hands-on Recordings Input dataset Workflows
Removal of human reads from SARS-CoV-2 sequencing data
SARS-CoV-2 Viral Sample Alignment and Variant Visualization

Variant Analysis

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

Editorial Board

This material is reviewed by our Editorial Board:

orcid logoWolfgang Maier avatar Wolfgang Maier

Contributors

This material was contributed to by:

Jon Trow avatar Jon Troworcid logoNicola Soranzo avatar Nicola Soranzoorcid logoHelena Rasche avatar Helena Rascheorcid logoBert Droesbeke avatar Bert DroesbekeFrederick Tan avatar Frederick TanAdelaide Rhodes avatar Adelaide RhodesCandace Savonen avatar Candace Savonenorcid logoDave Clements avatar Dave Clementsorcid logoMartin Čech avatar Martin Čechorcid logoTeresa Müller avatar Teresa MüllerJasper Ouwerkerk avatar Jasper Ouwerkerkorcid logoArmin Dadras avatar Armin DadrasNatalie Kucher avatar Natalie KucherKatherine Cox avatar Katherine CoxMélanie Petera avatar Mélanie Peteraorcid logoAnthony Bretaudeau avatar Anthony BretaudeauAva Hoffman avatar Ava HoffmanAnton Nekrutenko avatar Anton NekrutenkoRobert Meller avatar Robert Mellerorcid logoDaniel Blankenberg avatar Daniel BlankenbergElizabeth Humphries avatar Elizabeth Humphriesorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-SolanoBoris Depoortere avatar Boris Depoortereorcid logoBjörn Grüning avatar Björn GrüningMiguel Roncoroni avatar Miguel RoncoroniMarius van den Beek avatar Marius van den Beekorcid logoBérénice Batut avatar Bérénice Batutorcid logoSaskia Hiltemann avatar Saskia HiltemannSimon Bray avatar Simon Brayorcid logoWolfgang Maier avatar Wolfgang Maier

Funding

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