Assembly

DNA sequence data has become an indispensable tool for Molecular Biology & Evolutionary Biology. Study in these fields now require a genome sequence to work from. We call this a ‘Reference Sequence.’ We need to build a reference for each species. We do this by Genome Assembly. De novo Genome Assembly is the process of reconstructing the original DNA sequence from the fragment reads alone.

Requirements

Before diving into this topic, we recommend you to have a look at:

Material

You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.
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 of the mitochondrial genome from PacBio HiFi reads
Chloroplast genome assembly
De Bruijn Graph Assembly
Decontamination of a genome assembly
Deeper look into Genome Assembly algorithms
ERGA post-assembly QC
Genome Assembly Quality Control
Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)
Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data
Genome assembly and assembly QC - Introduction short version
Genome assembly using PacBio data
Hybrid genome assembly - Nanopore and Illumina
Large genome assembly and polishing
Making sense of a newly assembled genome
Unicycler Assembly
Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data
Vertebrate genome assembly using HiFi, Bionano and Hi-C data - Step by Step

Frequently Asked Questions

Common questions regarding this topic have been collected on a dedicated FAQ page . Common questions related to specific tutorials can be accessed from the tutorials themselves.

Follow topic updates rss-feed with our RSS Feed

Community Resources

Community Home Maintainer Home

Editorial Board

This material is reviewed by our Editorial Board:

orcid logoDelphine Lariviere avatar Delphine Lariviereorcid logoTristan Reynolds avatar Tristan ReynoldsAnton Nekrutenko avatar Anton Nekrutenko

Are you on the editorial board or want to help out with this topic? View the topic maintainer page for ways to improve this topic!

Contributors

This material was contributed to by:

orcid logoAnthony Bretaudeau avatar Anthony Bretaudeauorcid logoNate Coraor avatar Nate Coraororcid logoRomane LIBOUBAN avatar Romane LIBOUBANorcid logoDelphine Lariviere avatar Delphine Lariviereorcid logoStéphanie Robin avatar Stéphanie Robinorcid logoSolenne Correard avatar Solenne Correardorcid logoWolfgang Maier avatar Wolfgang MaierGrace Hall avatar Grace Hallorcid logoBérénice Batut avatar Bérénice Batutorcid logoMiaomiao Zhou avatar Miaomiao Zhouorcid logoAnna Syme avatar Anna Symeorcid logoTom Brown avatar Tom Brownorcid logoPaul Zierep avatar Paul ZierepMarcella Sozzoni avatar Marcella Sozzoniorcid logoLinelle Abueg avatar Linelle AbuegGiulio Formenti avatar Giulio FormentiFabian Recktenwald avatar Fabian Recktenwaldorcid logoAlexandre Cormier avatar Alexandre Cormierorcid logoVini Salazar avatar Vini Salazarorcid logoTristan Reynolds avatar Tristan Reynoldsorcid logoPolina Polunina avatar Polina PoluninaBrandon Pickett avatar Brandon Pickettorcid logoHelena Rasche avatar Helena RascheVerena Moosmann avatar Verena Moosmannorcid logoLaura Leroi avatar Laura Leroiorcid logoBjörn Grüning avatar Björn Grüningorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoTeresa Müller avatar Teresa MüllerBazante Sanders avatar Bazante Sandersorcid logoSimon Gladman avatar Simon GladmanAnton Nekrutenko avatar Anton NekrutenkoMatúš Kalaš avatar Matúš Kalašorcid logoErwan Corre avatar Erwan Correorcid logoDeepti Varshney avatar Deepti Varshneyorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoSaskia Hiltemann avatar Saskia Hiltemann

Funding

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