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:

Marius van den Beek avatar Marius van den Beekorcid logoBjörn Grüning avatar Björn Grüningorcid logoMaria Doyle avatar Maria Doyleorcid logoTristan Reynolds avatar Tristan Reynoldsorcid logoRomane LIBOUBAN avatar Romane LIBOUBANBrandon Pickett avatar Brandon Pickettorcid logoSaskia Hiltemann avatar Saskia HiltemannWilliam Durand avatar William Durandorcid logoTeresa Müller avatar Teresa MüllerNatalie Whitaker-Allen avatar Natalie Whitaker-AllenAnton Nekrutenko avatar Anton Nekrutenkoorcid logoWolfgang Maier avatar Wolfgang Maierorcid logoNate Coraor avatar Nate Coraororcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoPaul Zierep avatar Paul Ziereporcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoStéphanie Robin avatar Stéphanie Robinorcid logoDeepti Varshney avatar Deepti Varshneyorcid logoHelena Rasche avatar Helena RascheVerena Moosmann avatar Verena Moosmannorcid logoLinelle Abueg avatar Linelle Abuegorcid logoNicola Soranzo avatar Nicola SoranzoMatúš Kalaš avatar Matúš KalašNiall Beard avatar Niall Beardorcid logoBérénice Batut avatar Bérénice Batutorcid logoSimon Gladman avatar Simon GladmanGiulio Formenti avatar Giulio Formentiorcid logoErwan Corre avatar Erwan Correorcid logoDelphine Lariviere avatar Delphine LariviereBazante Sanders avatar Bazante SandersGrace Hall avatar Grace Hallorcid logoGiuseppe Defazio avatar Giuseppe Defazioorcid logoVini Salazar avatar Vini SalazarMarcella Sozzoni avatar Marcella SozzoniGildas Le Corguillé avatar Gildas Le Corguilléorcid logoLaura Leroi avatar Laura Leroiorcid logoSolenne Correard avatar Solenne CorreardWillem de Koning avatar Willem de Koningorcid logoAnna Syme avatar Anna Symeorcid logoPolina Polunina avatar Polina Poluninaorcid logoTom Brown avatar Tom BrownEnis Afgan avatar Enis Afganorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoAlexandre Cormier avatar Alexandre CormierFabian Recktenwald avatar Fabian Recktenwaldorcid logoMiaomiao Zhou avatar Miaomiao Zhou

Funding

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

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IFB
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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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ABRomics
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ELIXIR Europe
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Australian BioCommons
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The University of Melbourne
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Melbourne Bioinformatics
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Avans