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:

orcid logoStéphanie Robin avatar Stéphanie RobinGiulio Formenti avatar Giulio Formentiorcid logoMarius van den Beek avatar Marius van den Beekorcid logoMiaomiao Zhou avatar Miaomiao Zhouorcid logoAnthony Bretaudeau avatar Anthony BretaudeauNiall Beard avatar Niall Beardorcid logoWolfgang Maier avatar Wolfgang MaierMatúš Kalaš avatar Matúš KalašWilliam Durand avatar William Durandorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoTristan Reynolds avatar Tristan ReynoldsGildas Le Corguillé avatar Gildas Le Corguilléorcid logoNicola Soranzo avatar Nicola SoranzoAnton Nekrutenko avatar Anton Nekrutenkoorcid logoDelphine Lariviere avatar Delphine Lariviereorcid logoLinelle Abueg avatar Linelle Abuegorcid logoPolina Polunina avatar Polina Poluninaorcid logoAlexandre Cormier avatar Alexandre CormierMarcella Sozzoni avatar Marcella Sozzoniorcid logoBérénice Batut avatar Bérénice Batutorcid logoLaura Leroi avatar Laura LeroiGrace Hall avatar Grace HallVerena Moosmann avatar Verena Moosmannorcid logoRomane LIBOUBAN avatar Romane LIBOUBANFabian Recktenwald avatar Fabian RecktenwaldWillem de Koning avatar Willem de KoningNatalie Whitaker-Allen avatar Natalie Whitaker-AllenBazante Sanders avatar Bazante Sandersorcid logoMaria Doyle avatar Maria Doyleorcid logoPaul Zierep avatar Paul Ziereporcid logoSolenne Correard avatar Solenne Correardorcid logoSaskia Hiltemann avatar Saskia HiltemannBrandon Pickett avatar Brandon Pickettorcid logoTom Brown avatar Tom Brownorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoTeresa Müller avatar Teresa Müllerorcid logoNate Coraor avatar Nate Coraororcid logoGiuseppe Defazio avatar Giuseppe DefazioEnis Afgan avatar Enis Afganorcid logoAnna Syme avatar Anna Symeorcid logoBjörn Grüning avatar Björn Grüningorcid logoHelena Rasche avatar Helena Rascheorcid logoSimon Gladman avatar Simon Gladmanorcid logoVini Salazar avatar Vini Salazarorcid logoDeepti Varshney avatar Deepti Varshneyorcid logoErwan Corre avatar Erwan Corre

Funding

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

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