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 logoBérénice Batut avatar Bérénice Batutorcid logoNicola Soranzo avatar Nicola Soranzoorcid logoDaniel Blankenberg avatar Daniel Blankenbergorcid logoAnthony Bretaudeau avatar Anthony BretaudeauJasper Ouwerkerk avatar Jasper Ouwerkerkorcid logoWolfgang Maier avatar Wolfgang MaierKatherine Cox avatar Katherine CoxJon Trow avatar Jon Troworcid logoHelena Rasche avatar Helena RascheMélanie Petera avatar Mélanie PeteraAdelaide Rhodes avatar Adelaide RhodesSimon Bray avatar Simon BrayNatalie Kucher avatar Natalie Kucherorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solanoorcid logoSaskia Hiltemann avatar Saskia HiltemannFrederick Tan avatar Frederick TanBoris Depoortere avatar Boris Depoortereorcid logoBert Droesbeke avatar Bert DroesbekeTeresa Müller avatar Teresa MüllerRobert Meller avatar Robert MellerAva Hoffman avatar Ava HoffmanCandace Savonen avatar Candace Savonenorcid logoBjörn Grüning avatar Björn GrüningMiguel Roncoroni avatar Miguel RoncoroniAnton Nekrutenko avatar Anton Nekrutenkoorcid logoDave Clements avatar Dave ClementsMarius van den Beek avatar Marius van den BeekElizabeth Humphries avatar Elizabeth Humphries

Funding

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