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 RecktenwaldAnton Nekrutenko avatar Anton Nekrutenkoorcid logoSolenne Correard avatar Solenne Correardorcid logoDeepti Varshney avatar Deepti VarshneyWilliam Durand avatar William DurandNatalie Whitaker-Allen avatar Natalie Whitaker-AllenMarius van den Beek avatar Marius van den Beekorcid logoPolina Polunina avatar Polina Poluninaorcid logoAlexandre Cormier avatar Alexandre Cormierorcid logoLaura Leroi avatar Laura Leroiorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoGiuseppe Defazio avatar Giuseppe DefazioNiall Beard avatar Niall BeardGiulio Formenti avatar Giulio FormentiMatúš Kalaš avatar Matúš Kalašorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoNate Coraor avatar Nate CoraorEnis Afgan avatar Enis Afganorcid logoBjörn Grüning avatar Björn Grüningorcid logoRomane LIBOUBAN avatar Romane LIBOUBANorcid logoErwan Corre avatar Erwan Correorcid logoMiaomiao Zhou avatar Miaomiao Zhouorcid logoVini Salazar avatar Vini Salazarorcid logoNicola Soranzo avatar Nicola SoranzoBrandon Pickett avatar Brandon Pickettorcid logoSimon Gladman avatar Simon Gladmanorcid logoAnna Syme avatar Anna Symeorcid logoWolfgang Maier avatar Wolfgang Maierorcid logoTom Brown avatar Tom Brownorcid logoStéphanie Robin avatar Stéphanie Robinorcid logoHelena Rasche avatar Helena RascheWillem de Koning avatar Willem de Koningorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoTeresa Müller avatar Teresa Müllerorcid logoMaria Doyle avatar Maria Doyleorcid logoTristan Reynolds avatar Tristan Reynoldsorcid logoBérénice Batut avatar Bérénice Batutorcid logoLinelle Abueg avatar Linelle Abuegorcid logoDelphine Lariviere avatar Delphine LariviereVerena Moosmann avatar Verena Moosmannorcid logoCristóbal Gallardo avatar Cristóbal GallardoGrace Hall avatar Grace HallGildas Le Corguillé avatar Gildas Le CorguilléBazante Sanders avatar Bazante Sandersorcid logoPaul Zierep avatar Paul ZierepMarcella Sozzoni avatar Marcella Sozzoni

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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Avans
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ABRomics
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Melbourne Bioinformatics
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The University of Melbourne
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IFB
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Australian BioCommons