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:

Jasper Ouwerkerk avatar Jasper OuwerkerkMélanie Petera avatar Mélanie PeteraRobert Meller avatar Robert Mellerorcid logoBérénice Batut avatar Bérénice BatutJon Trow avatar Jon Troworcid logoTeresa Müller avatar Teresa Müllerorcid logoHelena Rasche avatar Helena RascheNatalie Kucher avatar Natalie KucherAdelaide Rhodes avatar Adelaide Rhodesorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoDaniel Blankenberg avatar Daniel Blankenbergorcid logoWolfgang Maier avatar Wolfgang MaierSimon Bray avatar Simon Brayorcid logoBjörn Grüning avatar Björn GrüningBoris Depoortere avatar Boris DepoortereFrederick Tan avatar Frederick TanElizabeth Humphries avatar Elizabeth HumphriesAnton Nekrutenko avatar Anton Nekrutenkoorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-SolanoMiguel Roncoroni avatar Miguel Roncoroniorcid logoNicola Soranzo avatar Nicola SoranzoCandace Savonen avatar Candace Savonenorcid logoBert Droesbeke avatar Bert DroesbekeKatherine Cox avatar Katherine CoxAva Hoffman avatar Ava HoffmanMarius van den Beek avatar Marius van den Beekorcid logoDave Clements avatar Dave Clements

Funding

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