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
Avian influenza viral strain analysis from gene segment sequencing data
virology one-health
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
Querying the University of Bradford GDC Beacon Database for Copy Number Variants (CNVs)
Somatic Variant Discovery from WES Data Using Control-FREEC
Trio Analysis using Synthetic Datasets from RD-Connect GPAP
cyoa
Working with Beacon V2: A Comprehensive Guide to Creating, Uploading, and Searching for Variants with Beacons

Contributors

This material was contributed to by:

orcid logoNicola Soranzo avatar Nicola Soranzoorcid logoMartin Čech avatar Martin Čechorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoMaria Doyle avatar Maria Doyleorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoPeter van Heusden avatar Peter van HeusdenEkaterina Polkh avatar Ekaterina PolkhGildas Le Corguillé avatar Gildas Le Corguilléorcid logoCristóbal Gallardo avatar Cristóbal GallardoSimon Bray avatar Simon BrayNiall Beard avatar Niall Beardorcid logoTomas Klingström avatar Tomas Klingströmorcid logoKhaled Jum'ah avatar Khaled Jum'ahMélanie Petera avatar Mélanie Peteraorcid logoSimon Gladman avatar Simon Gladmanorcid logoHelena Rasche avatar Helena Rascheorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solanoorcid logoTristan Reynolds avatar Tristan Reynoldsorcid logoLinelle Abueg avatar Linelle Abuegorcid logoAnna Syme avatar Anna SymeNick Stoler avatar Nick Stolerorcid logoDaniel Blankenberg avatar Daniel BlankenbergDavid Salgado avatar David SalgadoTorsten Seemann avatar Torsten Seemannorcid logoJennifer Hillman-Jackson avatar Jennifer Hillman-Jacksonorcid logoBérénice Batut avatar Bérénice Batutorcid logoJörg Wennmann avatar Jörg Wennmannorcid logoAnika Erxleben avatar Anika ErxlebenVerena Moosmann avatar Verena Moosmannorcid logoWolfgang Maier avatar Wolfgang MaierTorsten Houwaart avatar Torsten Houwaartorcid logoBjörn Grüning avatar Björn GrüningThoba Lose avatar Thoba Loseorcid logoTeresa Müller avatar Teresa Müllerorcid logoKatarzyna Kamieniecka avatar Katarzyna KamienieckaJasper Ouwerkerk avatar Jasper OuwerkerkMarius van den Beek avatar Marius van den Beekorcid logoKrzysztof Poterlowicz avatar Krzysztof Poterlowiczorcid logoDave Clements avatar Dave Clementsorcid logoSaskia Hiltemann avatar Saskia HiltemannAnton Nekrutenko avatar Anton Nekrutenkoorcid logoYvan Le Bras avatar Yvan Le Brasorcid logoArmin Dadras avatar Armin Dadras

Funding

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

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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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Melbourne Bioinformatics
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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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UFR
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Australian BioCommons
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ELIXIR Europe
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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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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