assembly

Tutorials covering assembly

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
An Introduction to Genome Assembly
An introduction to get started in genome assembly and annotation
Assembly of metagenomic sequencing data
assembly metagenomics microgalaxy
Assembly of metagenomic sequencing data
assembly metagenomics microgalaxy
Assembly of the mitochondrial genome from PacBio HiFi reads
biodiversity
Chloroplast genome assembly
plants nanopore jbrowse1 biodiversity
De Bruijn Graph Assembly
Decontamination of a genome assembly
biodiversity
Deeper look into Genome Assembly algorithms
ERGA post-assembly QC
plants animals genome assembly QC biodiversity
ERGA post-assembly QC
plants animals genome assembly QC biodiversity
Genome Assembly Quality Control
assembly quality control biodiversity
Genome Assembly Quality Control
assembly quality control biodiversity
Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)
nanopore assembly amr microgalaxy
Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)
nanopore assembly amr microgalaxy
Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data
illumina assembly microgalaxy
Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data
illumina assembly microgalaxy
Genome assembly and assembly QC - Introduction short version
Genome assembly using PacBio data
assembly pacbio biodiversity
Genome assembly using PacBio data
assembly pacbio biodiversity
Hybrid genome assembly - Nanopore and Illumina
assembly nanopore illumina denovo genomics
Hybrid genome assembly - Nanopore and Illumina
assembly nanopore illumina denovo genomics
Large genome assembly and polishing
assembly polishing nanopore plants biodiversity
Large genome assembly and polishing
assembly polishing nanopore plants biodiversity
Making sense of a newly assembled genome
gmod prokaryote microgalaxy jbrowse1
Unicycler Assembly
prokaryote microgalaxy biodiversity
Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
covid19 biodiversity
Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data
pacbio eukaryote VGP biodiversity
Vertebrate genome assembly using HiFi, Bionano and Hi-C data - Step by Step
pacbio eukaryote VGP biodiversity

Microbiome

Lesson Slides Hands-on Recordings Input dataset Workflows
Antibiotic resistance detection
nanopore plasmids assembly amr microgalaxy
Assembly of metagenomic sequencing data
assembly metagenomics microgalaxy
Building and Annotating Metagenome-Assembled Genomes (MAGs) from Short Metagenomics Paired Reads
assembly binning metagenomics microgalaxy

Contributors

This material was contributed to by:

Fabian Recktenwald avatar Fabian RecktenwaldMarcella Sozzoni avatar Marcella SozzoniEnis Afgan avatar Enis AfganNatalie Whitaker-Allen avatar Natalie Whitaker-Allenorcid logoSolenne Correard avatar Solenne Correardorcid logoSimon Gladman avatar Simon Gladmanorcid logoTom Brown avatar Tom Brownorcid logoVini Salazar avatar Vini Salazarorcid logoWolfgang Maier avatar Wolfgang Maierorcid logoDeepti Varshney avatar Deepti Varshneyorcid logoMiaomiao Zhou avatar Miaomiao Zhouorcid logoStéphanie Robin avatar Stéphanie Robinorcid logoGiuseppe Defazio avatar Giuseppe Defazioorcid logoDelphine Lariviere avatar Delphine Lariviereorcid logoTeresa Müller avatar Teresa Müllerorcid logoPaul Zierep avatar Paul Ziereporcid logoPolina Polunina avatar Polina Poluninaorcid logoAnna Syme avatar Anna SymeBrandon Pickett avatar Brandon Pickettorcid logoMaria Doyle avatar Maria DoyleGiulio Formenti avatar Giulio FormentiBazante Sanders avatar Bazante Sandersorcid logoHelena Rasche avatar Helena RascheMatúš Kalaš avatar Matúš KalašWilliam Durand avatar William Durandorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoLinelle Abueg avatar Linelle Abuegorcid logoBjörn Grüning avatar Björn GrüningVerena Moosmann avatar Verena Moosmannorcid logoRomane LIBOUBAN avatar Romane LIBOUBANorcid logoNate Coraor avatar Nate Coraororcid logoAlexandre Cormier avatar Alexandre Cormierorcid logoTristan Reynolds avatar Tristan ReynoldsGrace Hall avatar Grace Hallorcid logoNicola Soranzo avatar Nicola SoranzoAnton Nekrutenko avatar Anton NekrutenkoWillem de Koning avatar Willem de Koningorcid logoBérénice Batut avatar Bérénice Batutorcid logoMarius van den Beek avatar Marius van den BeekNiall Beard avatar Niall Beardorcid logoErwan Corre avatar Erwan Correorcid logoLaura Leroi avatar Laura LeroiGildas Le Corguillé avatar Gildas Le Corguillé

Funding

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

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ELIXIR Europe
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Gallantries
This project (2020-1-NL01-KA203-064717) is funded with the support of the Erasmus+ programme of the European Union. Their funding has supported a large number of tutorials within the GTN across a wide array of topics.
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IFB
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Australian BioCommons
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Melbourne Bioinformatics
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Avans
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ABRomics
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The University of Melbourne