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:

Enis Afgan avatar Enis Afganorcid logoTristan Reynolds avatar Tristan ReynoldsBrandon Pickett avatar Brandon PickettNatalie Whitaker-Allen avatar Natalie Whitaker-AllenMarius van den Beek avatar Marius van den Beekorcid logoSimon Gladman avatar Simon GladmanWilliam Durand avatar William Durandorcid logoTom Brown avatar Tom Brownorcid logoMiaomiao Zhou avatar Miaomiao Zhouorcid logoNate Coraor avatar Nate CoraorGrace Hall avatar Grace Hallorcid logoHelena Rasche avatar Helena Rascheorcid logoLinelle Abueg avatar Linelle Abuegorcid logoStéphanie Robin avatar Stéphanie RobinVerena Moosmann avatar Verena Moosmannorcid logoAnna Syme avatar Anna SymeAnton Nekrutenko avatar Anton NekrutenkoMarcella Sozzoni avatar Marcella SozzoniGiulio Formenti avatar Giulio Formentiorcid logoBjörn Grüning avatar Björn Grüningorcid logoGiuseppe Defazio avatar Giuseppe Defazioorcid logoMaria Doyle avatar Maria DoyleWillem de Koning avatar Willem de Koningorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoNicola Soranzo avatar Nicola SoranzoMatúš Kalaš avatar Matúš Kalašorcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoDeepti Varshney avatar Deepti Varshneyorcid logoErwan Corre avatar Erwan Correorcid logoTeresa Müller avatar Teresa Müllerorcid logoSolenne Correard avatar Solenne Correardorcid logoPaul Zierep avatar Paul ZierepGildas Le Corguillé avatar Gildas Le Corguilléorcid logoAlexandre Cormier avatar Alexandre CormierNiall Beard avatar Niall Beardorcid logoDelphine Lariviere avatar Delphine Lariviereorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoPolina Polunina avatar Polina Poluninaorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoLaura Leroi avatar Laura Leroiorcid logoVini Salazar avatar Vini SalazarFabian Recktenwald avatar Fabian Recktenwaldorcid logoRomane LIBOUBAN avatar Romane LIBOUBANorcid logoWolfgang Maier avatar Wolfgang MaierBazante Sanders avatar Bazante Sandersorcid logoBérénice Batut avatar Bérénice Batut

Funding

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

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