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:

orcid logoWolfgang Maier avatar Wolfgang Maierorcid logoNicola Soranzo avatar Nicola Soranzoorcid logoSaskia Hiltemann avatar Saskia HiltemannFrederick Tan avatar Frederick Tanorcid logoDave Clements avatar Dave ClementsMarius van den Beek avatar Marius van den Beekorcid logoBérénice Batut avatar Bérénice BatutAnton Nekrutenko avatar Anton Nekrutenkoorcid logoHelena Rasche avatar Helena RascheAva Hoffman avatar Ava Hoffmanorcid logoDaniel Blankenberg avatar Daniel BlankenbergMiguel Roncoroni avatar Miguel RoncoroniAdelaide Rhodes avatar Adelaide Rhodesorcid logoAnthony Bretaudeau avatar Anthony BretaudeauBoris Depoortere avatar Boris DepoortereCandace Savonen avatar Candace SavonenRobert Meller avatar Robert Mellerorcid logoBert Droesbeke avatar Bert Droesbekeorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-SolanoElizabeth Humphries avatar Elizabeth HumphriesSimon Bray avatar Simon BrayNatalie Kucher avatar Natalie KucherJon Trow avatar Jon Troworcid logoMartin Čech avatar Martin Čechorcid logoBjörn Grüning avatar Björn GrüningKatherine Cox avatar Katherine Coxorcid logoArmin Dadras avatar Armin DadrasMélanie Petera avatar Mélanie Peteraorcid logoTeresa Müller avatar Teresa MüllerJasper Ouwerkerk avatar Jasper Ouwerkerk

Funding

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