SARS-CoV-2

Tutorials covering analysis of SARS-CoV-2 (COVID 19)

For any question or discussions related to this topic, or to connect with others in the community, please visit the community chat:

  Community Matrix Chat

Material

You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides () and 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
covid19

Computational chemistry

Lesson Slides Hands-on Recordings Input dataset Workflows
Virtual screening of the SARS-CoV-2 main protease with rxDock and pose scoring
covid19 one-health

Using Galaxy and Managing your Data

Lesson Slides Hands-on Recordings Input dataset Workflows
Automating Galaxy workflows using the command line
workflows variant-analysis covid19
SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis
ncbi covid19
Submitting sequence data to ENA
covid19

Sequence analysis

Lesson Slides Hands-on Recordings Input dataset Workflows
Removal of human reads from SARS-CoV-2 sequencing data
covid19
SARS-CoV-2 Viral Sample Alignment and Variant Visualization
covid19 gmod jbrowse1

Variant Analysis

Lesson Slides Hands-on Recordings Input dataset Workflows
From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis
covid19 virology one-health
Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
covid19 virology one-health

Editorial Board

This material is reviewed by our Editorial Board:

orcid logoWolfgang Maier avatar Wolfgang Maier

Contributors

This material was contributed to by:

orcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solano orcid logoHelena Rasche avatar Helena Rasche orcid logoNicola Soranzo avatar Nicola Soranzo Miguel Roncoroni avatar Miguel Roncoroni orcid logoBert Droesbeke avatar Bert Droesbeke Mehmet Tekman avatar Mehmet Tekman Teresa Müller avatar Teresa Müller orcid logoSimon Gladman avatar Simon Gladman orcid logoBérénice Batut avatar Bérénice Batut Ava Hoffman avatar Ava Hoffman orcid logoSaskia Hiltemann avatar Saskia Hiltemann orcid logoDaniel Blankenberg avatar Daniel Blankenberg orcid logoWolfgang Maier avatar Wolfgang Maier Candace Savonen avatar Candace Savonen orcid logoBjörn Grüning avatar Björn Grüning orcid logoAnthony Bretaudeau avatar Anthony Bretaudeau Simon Bray avatar Simon Bray Jon Trow avatar Jon Trow Mélanie Petera avatar Mélanie Petera Marius van den Beek avatar Marius van den Beek orcid logoNate Coraor avatar Nate Coraor Robert Meller avatar Robert Meller Natalie Kucher avatar Natalie Kucher Anton Nekrutenko avatar Anton Nekrutenko Elizabeth Humphries avatar Elizabeth Humphries Boris Depoortere avatar Boris Depoortere Frederick Tan avatar Frederick Tan orcid logoDave Clements avatar Dave Clements Jasper Ouwerkerk avatar Jasper Ouwerkerk Katherine Cox avatar Katherine Cox Adelaide Rhodes avatar Adelaide Rhodes

Funding

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

Logo
ELIXIR-CONVERGE
ELIXIR CONVERGE is connecting and align ELIXIR Nodes to deliver sustainable FAIR life-science data management services. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement № 871075
Logo
NHGRI ANVIL
Logo
NHGRI GDS Community Network
Logo
BeYond-COVID
BY-COVID is an EC funded project that tackles the data challenges that can hinder effective pandemic response. This project has received funding from the European Union’s Horizon Europe research and innovation programme under grant agreement № 101046203 (BY-COVID)