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This repository contains course materials for a workshop on structural genome annotation with BRAKER and TSEBRA
Genome annotation
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238 day(s)
License
GNU General Public License v3.0
Authors
Genome assembly Unix/Linux High performance computing
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477 day(s)
License
GNU General Public License v3.0
Genomics Variant analysis Comparative genomics
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1007 day(s)
License
Creative Commons Zero v1.0 Universal
Authors
Mark Ravinet, Joana Meier
Genomics Variant analysis Population genetics
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License
MIT License
Authors
Hadrien Gourlé, Juliette Hayer, Oskar Karlsson, Jacques Dainat
High performance computing Genomics Genome assembly Genome annotation Next generation sequencing
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License
Creative Commons Attribution 4.0
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.
Authors
Delphine Lariviere, Alex Ostrovsky, Cristóbal Gallardo, Anna Syme, Linelle Abueg, Brandon Pickett, Giulio Formenti, Marcella Sozzoni, Anton Nekrutenko
Galaxy Genome assembly Long read sequencing
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License
Creative Commons Attribution 4.0
Genome annotation is a multi-level process that includes prediction of protein-coding genes, as well as other functional genome units such as structural RNAs, tRNAs, small RNAs, pseudogenes, control regions, direct and inverted repeats, insertion sequences, transposons and other mobile elements.
Authors
Anthony Bretaudeau
Genome annotation Galaxy
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License
Creative Commons Attribution 4.0
Genome annotation is a multi-level process that includes prediction of protein-coding genes, as well as other functional genome units such as structural RNAs, tRNAs, small RNAs, pseudogenes, control regions, direct and inverted repeats, insertion sequences, transposons and other mobile elements.
Authors
Anthony Bretaudeau
Galaxy Genome annotation
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License
Creative Commons Attribution 4.0
Genome bioinformatics: from short- to long-read sequencing materials 2023
Authors
Kayesha Coley, Chiara Batini, Charles Solomon, Maxime Tarabachi, Erik Garrison, Sean Laidlaw, Yo Yehudi, Daniel Thomas López, Louisse Mirabueno, Maira Ihsan, Dona Shaju
Next generation sequencing Long read sequencing Variant analysis Reproducibility Data management
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License
Creative Commons Attribution 4.0
https://BGA23.org/MitoHiFiAssembling Mitogenomes from PacBio HiFi reads using MitoHiFiThis session is part of Biodiversity Genomics Academy 2023Session Leade...
Authors
Marcela Uliano-Silva
Genomics Genome assembly Long read sequencing
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License
Standard Youtube License
https://bga23.org/genomescopeGenome profiling using GenomeScopeThis session is part of Biodiversity Genomics Academy 2023Session Leader(s)Lucía Campos-Domíng...
Authors
Lucía Campos-Domínguez
Kamil Jaron
Genomics
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License
Standard Youtube License
Authors
Yannis Nevers
Genomics Genome annotation Comparative genomics
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License
Standard Youtube License
EMBL-EBI Train online course
Authors
Cath Brooksbank
Andrew Cowley
Data submission Database Management
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License
Creative Commons Attribution 4.0
EMBL-EBI Train online course
Authors
Data management FAIR data Reproducibility
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License
Creative Commons Attribution 4.0
EMBL-EBI Train online course
Authors

Emily Perry
Benjamin Moore
Helen Sparrow
Giulietta M. Spudich
Aleena Mushtaq
Genome annotation Database Management
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License
Creative Commons Attribution 4.0
EMBL-EBI Train online course
Authors

Sam Holt
Clara Amid
Maira Ihsan
Data management Data submission
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License
Creative Commons Attribution 4.0
EMBL-EBI Train online course
Authors
Laura Emery
Phylogenetics / Phylogenomics
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License
Creative Commons Attribution 4.0
Authors
Conservation genomics Genomics Next generation sequencing Population genetics
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License
Standard Youtube License
RNA sequencing (RNAseq) is a powerful technique for investigating gene expression in biological samples. Processing and analysing RNAseq data involves multip...
Authors
Dr Nandan Deshpande
RNA-seq Next generation sequencing Genome annotation
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License
Creative Commons Attribution 4.0
Life scientists are increasingly using whole genome sequencing (WGS) to ask and answer research questions across the tree of life. Before any of this work ca...
Authors
Dr Georgina Samaha
Genomics Variant analysis
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License
Creative Commons Attribution 4.0
Authors
Genomics Next generation sequencing Unix/Linux Data management RNA-seq Variant analysis
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License
GNU General Public License v3.0
The talk starts at 00:06:30. This session was held as part of the webinar series "A Primer on Science Policy for Biodiversity Research" co-hosted by the Glob...
Authors
Scarlett Sett
ABS Nagoya
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License
Standard Youtube License
Fulfilling new obligations among emerging issues
Authors
Evanson Chege Kamau
Nagoya ABS
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License
Creative Commons Attribution 4.0
What does compliance with access and benefit-sharing (ABS) rules mean and why is it important? What happens if you don't comply with ABS rules? Find out in this video.
Authors
German Nagoya Protocol HuB
ABS Nagoya
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License
Standard Youtube License
Description
Authors
ABS Biotrade
ABS
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License
Standard Youtube License

About

The ERGA Knowledge Hub is a list of training material and resources related to biomaterial sampling, reference genome generation, analysis, teaching, and legal and ethical aspects, curated by the community of the European Reference Genome Atlas. This initiative was made possible thanks to Biodiversity Genomics Europe (BGE) funded by the European Union under the Horizon Europe research and innovation program, co-funded by the Swiss and British governments.

All material is:

  • Submitted and curated by the ERGA Community

  • Free to use with accreditation

Terms of use

Developed, maintained and curated by:

Patricia Palagi
Yann Haefliger
Tom Brown
Diego De Panis
Luísa Marins
Christian de Guttry

Data last updated: 2024-07-17 01:00:38

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