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 Ouwerkerkorcid logoDave Clements avatar Dave Clementsorcid logoTeresa Müller avatar Teresa MüllerCandace Savonen avatar Candace SavonenAva Hoffman avatar Ava HoffmanNatalie Kucher avatar Natalie KucherRobert Meller avatar Robert Mellerorcid logoBjörn Grüning avatar Björn GrüningMiguel Roncoroni avatar Miguel Roncoroniorcid logoArmin Dadras avatar Armin DadrasSimon Bray avatar Simon BrayAdelaide Rhodes avatar Adelaide RhodesKatherine Cox avatar Katherine CoxJon Trow avatar Jon Troworcid logoNicola Soranzo avatar Nicola SoranzoMélanie Petera avatar Mélanie PeteraFrederick Tan avatar Frederick Tanorcid logoHelena Rasche avatar Helena RascheAnton Nekrutenko avatar Anton NekrutenkoElizabeth Humphries avatar Elizabeth Humphriesorcid logoMartin Čech avatar Martin Čechorcid logoDaniel Blankenberg avatar Daniel Blankenbergorcid logoBérénice Batut avatar Bérénice Batutorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solanoorcid logoSaskia Hiltemann avatar Saskia HiltemannBoris Depoortere avatar Boris Depoortereorcid logoWolfgang Maier avatar Wolfgang MaierMarius van den Beek avatar Marius van den Beekorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoBert Droesbeke avatar Bert Droesbeke

Funding

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