Explore the ERGA Knowledge Hub, an open, global home for Biodiversity Genomics teaching resources curated by the European Reference Genome Atlas Community. Share your lectures, tutorials, workshops, or other learning tools in any language and help us bridge borders. Stand-alone manuals or pipelines are welcome only when paired with clear instructional guidance. Put simply: if your material teaches how, not just what, we want to feature it! Want to know more? Check out our short intro video.

36 Resources

Page 1 / 2
Variant calling - sandbox.bio
Interactive bcftools and bowtie2 tutorial: learn to use variant calling to decode a secret message stored in sequencing data using a command-line interface in your browser.
Authors
Robert Aboukhalil
Skill level
Intermediate
Languages
en
English
Variant analysis
Submission date
2025-08-14
License
-
BLAST tutorial - sandbox.bio
Interactive BLAST tutorial: learn to align DNA and protein sequences using a command-line interface in your browser.
Authors
Shawn T. O’Neil
Skill level
Beginner
Languages
en
English
Genomics
Submission date
2025-08-14
License
Creative Commons Attribution 4.0 International
IGV tutorial
This lab will introduce you to the Integrative Genomics Viewer (IGV), one of the most popular visualization tools for High Throughput Sequencing (HTS) data.
Authors
Malachi Griffith, Sorana Morrissy, Jim Robinson, Ben Ainscough, Jason Walker, and Obi Griffith
Skill level
Beginner
Languages
en
English
Data visualization
Submission date
2025-08-14
License
-
Bedtools tutorial - sandbox.bio
Interactive bedtools tutorial: learn to wrangle BED files using a command-line interface in your browser.
Authors
Aaron Quinlan
Skill level
Beginner
Languages
en
English
Genomics
Submission date
2025-08-14
License
-
Terminal Basics - sandbox.bio
Interactive bash tutorial: learn to get up to speed using a command-line interface in your browser.
Authors
Robert Aboukhalil
Skill level
Beginner
Languages
en
English
Unix/Linux
Submission date
2025-08-14
License
-
Sequence alignment with bowtie2 - sandbox.bio
Interactive bowtie2 tutorial: learn to align sequencing reads to a reference genome using a command-line interface in your browser.
Authors
Ben Langmead
Skill level
Beginner
Next generation sequencing
Submission date
2025-08-14
License
Other
BUSCO - from QC to gene prediction and phylogenomics
By the end of this session you will be able to: Understand the main uses of BUSCO in genomics Understand how BUSCO operates behind the scenes Run example assessments of genomic data with BUSCO Navigate your way around the main BUSCO outputs
Authors
Assembly Evaluation Genome annotation
Last updated
2025-08-06
License
MIT License
Methods in genomic variant calling | EMBL-EBI Training
EMBL-EBI Train online course
Authors
Tobias Rausch
Skill level
Beginner
Languages
en
English
Variant analysis
Submission date
2025-08-06
License
Creative Commons Attribution 4.0 International
Functional genomics I | EMBL-EBI Training
EMBL-EBI Train online course
Authors
Melissa Burke, Laura Huerta
Skill level
Beginner
Languages
en
English
Functional Genomics Reproducibility Genomics
Submission date
2025-08-06
License
Creative Commons Attribution 4.0 International
Panel Seminars
Authors
Melanie LaCava, Alicia Mastretta-Yanes, Isaac Overcast, Jon Puritz, Jeffrey Good, Mikhail “Misha” Matz, Noah Reid, Tim Sackton, Nina Overgaard Therkildsen, Zach Gompert, Morgan Kelly, Katie Lotterhos, Jeff Ross-Ibarra, Ana Conesa, Sarah Davies, Martin Hölzer, Joanna Kelley, Harold Pimentel.
Genomics RNA-seq Population genetics Transcriptomics
Submission date
2025-08-01
License
Standard Youtube License
Hands-on: Reference-based RNA-Seq data analysis / Reference-based RNA-Seq data analysis / Transcriptomics
Training material for all kinds of transcriptomics analysis.
Authors
Bérénice Batut Mallory Freeberg Mo Heydarian Anika Erxleben Pavankumar Videm Clemens Blank Maria Doyle Nicola Soranzo Peter van Heusden Lucille Delisle
Skill level
Beginner
RNA-seq Transcriptomics Quality Control Genomics
Submission date
2025-08-01
License
Creative Commons Attribution 4.0 International
rapidspeciation/biodiversity_genomics_course
biodiversity genomics course by Nicol Rueda, Karin Näsvall and Joana Meier from the Wellcome Sanger Institute
Authors
Genomics Next generation sequencing Comparative genomics Population genetics Phylogenetics / Phylogenomics
Last updated
2025-06-08
License
-
Docker and Singularity for reproducible research: getting started with containers - Apr 2022
This collection of videos was recorded live during the SIB course “Docker and Singularity for reproducible research: getting started with containers” streame...
Authors
Dr. Geert van Geest
Docker Singularity
Submission date
2025-03-24
License
Creative Commons Attribution 4.0 International
NGS - Genome Variant Analysis
The playlist gathers the videos recorded during the SIB course “NGS - Genome Variant Analysis” streamed on 05-06 Sep 2023. In this two-day course we will cov...
Authors
Geert van Geest
Variant analysis Genome annotation
Submission date
2025-03-24
License
Creative Commons Attribution 4.0 International
Functional genomics II | EMBL-EBI Training
EMBL-EBI Train online course
Authors
Laura Huerta, Melissa Burke, Flaminia Zane
Functional Genomics Genomics Next generation sequencing RNA-seq Pathways and Networks Epigenetics
Submission date
2025-03-24
License
Creative Commons Attribution-NonCommercial 4.0
A Bioinformatics Guide
The Armenian Bioinformatics Institute (ABI, https://abi.am), in collaboration with the Bioinformatics Group at the Institute of Molecular Biology (IMB) NAS RA, has initiated an annual series of summer schools in genome bioinformatics. To extend the reach of these efforts, we have compiled the materials from these schools into this guide. This guide provides you with the foundational knowledge and skills needed to embark on your first bioinformatics project. While this is not an exhaustive resource, it serves as a starting point, equipping you with the tools and inspiration to pursue further education in this dynamic field
Authors
Aleksey Kurnosov, Vahan Huroyan, Susanna Avagyan, Maria Nikoghosyan, Lilit Nersisyan
R Python RNA-seq Genomics
Submission date
2025-02-20
License
Other open
k-mer approaches for biodiversity genomics
k-mer learning materials
Authors
Genomics Genome assembly Assembly Evaluation Quality Control
Last updated
2025-02-14
License
-
NIH Comparative Genomics Resource (CGR)
CGR helps maximize the full potential of eukaryotic research organisms and their genomic data through community collaboration, and an NCBI Toolkit of interco...
Authors
National Library of Medicine
Comparative genomics
Submission date
2024-12-16
License
Standard Youtube License
Course content | Plant genomes: from data to discovery
Plant genomes: from data to discovery
Genomics Data management Data submission Variant analysis Transcriptomics FAIR data Assembly Evaluation
Submission date
2024-12-16
License
Creative Commons Attribution 4.0 International
Pangenome Graphs
Authors
Erik Garrison, Andrea Guarracino
Genomics Comparative genomics
Submission date
2024-10-24
License
Creative Commons Attribution 4.0 International
A Brief Guide to Finding and Comparing Ortholog Data at NCBI - YouTube
This is a detailed tutorial showing how to start with a human protein, find a set of Cetacean orthologs, align the protein sequences, and explore amino acids...
Authors
National Library of Medicine
Comparative genomics
Last updated
2024-09-11
License
Standard Youtube License
Hands-on: Phylogenetics - Back to basics / Phylogenetics - Back to basics / Evolution
phylogenetics
Authors
Michael Charleston
Phylogenetics / Phylogenomics
Submission date
2024-06-06
License
Creative Commons Attribution 4.0 International
NBIS Workshop | Introduction to Bioinformatics using NGS data
Genomics Next generation sequencing Unix/Linux Data management RNA-seq Variant analysis
Submission date
2024-06-05
License
GNU General Public License v3.0
Training Modules - Threatened Species Initiative
Conservation genomics Genomics Next generation sequencing Population genetics
Submission date
2024-06-05
License
Standard Youtube License
Phylogenetics | EMBL-EBI Training
EMBL-EBI Train online course
Authors
Laura Emery
Phylogenetics / Phylogenomics
Submission date
2024-06-05
License
Creative Commons Attribution 4.0 International

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

We appreciate your feedback! By filling out the User Feedback Questionnaire , you’ll help us improve the ERGA Knowledge Hub, making it an even more valuable resource for the global scientific community.

Terms of use

Developed, maintained and curated by:

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

Data last updated: 2025-08-22 13:06:36

Powered by Glittr.org @ SIB

Swiss Institute of Bioinformatics
&

Biodiversity Genomics Europe

Biodiversity Genomics Europe
Topics