variant-analysis

Tutorials covering variant-analysis

Material

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

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

Variant Analysis

Lesson Slides Hands-on Recordings Input dataset Workflows
Introduction to Variant analysis
Querying the University of Bradford GDC Beacon Database for Copy Number Variants (CNVs)
Working with Beacon V2: A Comprehensive Guide to Creating, Uploading, and Searching for Variants with Beacons
Avian influenza viral strain analysis from gene segment sequencing data
virology one-health
Calculating CHEK2 variant effect scores from MAVE data with CountESS
MAVE DMS variant effect functional genomics clinical genomics
Calling variants in diploid systems
Calling variants in non-diploid systems
prokaryote microgalaxy
Calling very rare variants
Deciphering Virus Populations - Single Nucleotide Variants (SNVs) and Specificities in Baculovirus Isolates
Exome sequencing data analysis for diagnosing a genetic disease
From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis
covid19 virology one-health
Identification of somatic and germline variants from tumor and normal sample pairs
M. tuberculosis Variant Analysis
prokaryote one-health microgalaxy tuberculosis
Mapping and molecular identification of phenotype-causing mutations
Microbial Variant Calling
prokaryote microgalaxy gmod jbrowse1
Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data
covid19 virology one-health
Pox virus genome analysis from tiled-amplicon sequencing data
virology one-health
Somatic Variant Discovery from WES Data Using Control-FREEC
Trio Analysis using Synthetic Datasets from RD-Connect GPAP
cyoa

Contributors

This material was contributed to by:

orcid logoKatarzyna Kamieniecka avatar Katarzyna KamienieckaEkaterina Polkh avatar Ekaterina PolkhTorsten Seemann avatar Torsten Seemannorcid logoHelena Rasche avatar Helena Rascheorcid logoTomas Klingström avatar Tomas Klingströmorcid logoBérénice Batut avatar Bérénice Batutorcid logoDaniel Blankenberg avatar Daniel BlankenbergTorsten Houwaart avatar Torsten Houwaartorcid logoJennifer Hillman-Jackson avatar Jennifer Hillman-JacksonJasper Ouwerkerk avatar Jasper Ouwerkerkorcid logoPeter van Heusden avatar Peter van HeusdenMélanie Petera avatar Mélanie Peteraorcid logoTeresa Müller avatar Teresa MüllerNick Moore avatar Nick Mooreorcid logoWolfgang Maier avatar Wolfgang Maierorcid logoMartin Čech avatar Martin Čechorcid logoMarius van den Beek avatar Marius van den BeekAlan Rubin avatar Alan RubinThoba Lose avatar Thoba Loseorcid logoArmin Dadras avatar Armin Dadrasorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoTristan Reynolds avatar Tristan Reynoldsorcid logoKrzysztof Poterlowicz avatar Krzysztof Poterlowiczorcid logoMaria Doyle avatar Maria Doyleorcid logoAnna Syme avatar Anna SymeSimon Bray avatar Simon Brayorcid logoNicola Soranzo avatar Nicola SoranzoGildas Le Corguillé avatar Gildas Le CorguilléDavid Salgado avatar David Salgadoorcid logoAnika Erxleben avatar Anika Erxlebenorcid logoDave Clements avatar Dave Clementsorcid logoPolina Polunina avatar Polina PoluninaNick Stoler avatar Nick Stolerorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoLinelle Abueg avatar Linelle AbuegVerena Moosmann avatar Verena Moosmannorcid logoCristóbal Gallardo avatar Cristóbal GallardoNiall Beard avatar Niall BeardAnton Nekrutenko avatar Anton Nekrutenkoorcid logoJörg Wennmann avatar Jörg Wennmannorcid logoSimon Gladman avatar Simon Gladmanorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solanoorcid logoKhaled Jum'ah avatar Khaled Jum'ahorcid logoBjörn Grüning avatar Björn Grüningorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoYvan Le Bras avatar Yvan Le Bras

Funding

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

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The University of Melbourne
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EuroScienceGateway
EuroScienceGateway was funded by the European Union programme Horizon Europe (HORIZON-INFRA-2021-EOSC-01-04) under grant agreement number 101057388 and by UK Research and Innovation (UKRI) under the UK government’s Horizon Europe funding guarantee grant number 10038963.
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de.NBI
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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)
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UFR
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Australian BioCommons
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DEFEND
DEFEND is Addressing the dual emerging threats of African Swine Fever and Lumpy Skin Disease in Europe. This work has received funding from the DEFEND project (www.defend2020.eu) with funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 773701.
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Melbourne Bioinformatics
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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
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ELIXIR Europe