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:

Elizabeth Humphries avatar Elizabeth Humphriesorcid logoTeresa Müller avatar Teresa MüllerMiguel Roncoroni avatar Miguel RoncoroniJon Trow avatar Jon TrowJasper Ouwerkerk avatar Jasper Ouwerkerkorcid logoMartin Čech avatar Martin ČechAdelaide Rhodes avatar Adelaide RhodesAnton Nekrutenko avatar Anton Nekrutenkoorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-SolanoBoris Depoortere avatar Boris Depoortereorcid logoBert Droesbeke avatar Bert DroesbekeMélanie Petera avatar Mélanie Peteraorcid logoNicola Soranzo avatar Nicola Soranzoorcid logoWolfgang Maier avatar Wolfgang Maierorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoBérénice Batut avatar Bérénice Batutorcid logoBjörn Grüning avatar Björn GrüningSimon Bray avatar Simon Brayorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoDaniel Blankenberg avatar Daniel BlankenbergMarius van den Beek avatar Marius van den BeekRobert Meller avatar Robert MellerKatherine Cox avatar Katherine CoxAva Hoffman avatar Ava Hoffmanorcid logoHelena Rasche avatar Helena Rascheorcid logoArmin Dadras avatar Armin DadrasCandace Savonen avatar Candace Savonenorcid logoDave Clements avatar Dave ClementsFrederick Tan avatar Frederick TanNatalie Kucher avatar Natalie Kucher

Funding

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