The 2022 Workshop on Genomics is being held from 22 May through the 4th of June, 2022 in Český Krumlov, Czech Republic. This is the first time we will be organizing Workshops in the Summer months and is the 11th time the Workshop of Genomics will be held in the Czech Republic.
The Workshop on Genomics was developed in response to the increasing demand for training on how to effectively analyze and manage data generated by modern sequencing technologies. The Workshop curriculum includes extensive coverage of fundamental techniques required of all studies utilizing modern sequence data. The first half of the Workshop focuses on management and modification of modern sequence data files using the Unix command-line and editors to manipulate large data files, best practices for sequence data generation, management and analysis and how to use R to analyze biological data. The second-half of the Workshop is devoted to specific sub-disciplines within the genomic sciences. While these topics may change from year-to-year, efforts are made to devote significant amounts of time to techniques being used widely in the field (e.g. transcriptomics, genome assembly, metagenomics, population genomics).
The Workshop registration fee is $1,950. This amount does not cover travel, lodging or boarding. Many important details about this and other topics can be read on our FAQ page.
A full schedule can be viewed below. Modifications and additions to the schedule may be made at any time prior to the beginning of the Workshop; however, the overall content and structure will remain largely the same.
The Workshop on Genomics is organized by:
Dag Ahren, Lund University, Sweden
Rayan Chikhi, Institut Pasteur, France
Sonya Dyhrman, Columbia University, US
Scott Handley, Washington University, US
Guy Leonard, University of Oxford, UK
Josephine Paris, University of L’Aquila, Italy
Sophie Shaw, All Wales Medical Genomics Service, UK
Workshop Information
T-shirt competition – get designing!
Our Code of Conduct point of contact is Josephine Paris
Week 1 : 22-28 May, 2022
| Date | Day | Time | Presenter | Topic | Location |
|---|---|---|---|---|---|
| 22 May | Sunday | 6p – 10p | Everyone | Reception | Hotel Zlaty Andel |
| 23 May | Monday | 9a – 12p | Scott Handley and Daniel Kintzl | Introduction and Orientation Town Services Presentation | Egon Schiele Museum |
| Monday | 2p – 5p | Sonya Dyhrman | From flask to field: tracking the drivers of phytoplankton physiological ecology across marine ecosystems | Egon Schiele Museum | |
| Monday | 7:30p – 10p | Everyone | Scientific Speed Networking | Egon Schiele Museum | |
| 24 May | Tuesday | 9a – 12p | Mike Zody | Technology and Design Intro Read Alignment Variant Detection |
Egon Schiele Museum |
| Tuesday | 2p – 5p | Sophie Shaw | Introduction to Unix and Software Installation Lab | House of Prelate | |
| Tuesday | 7p – 10p | Sophie Shaw | Working with Sequence Data: Quality Control | House of Prelate | |
| 25 May | Wednesday | 9a – 12p | Kirsten Bos | Ancient DNA and Infectious Disease | Egon Schiele Museum |
| Wednesday | 2p – 5p | Mike Zody | Alignment Workshop 2022 | House of Prelate | |
| Wednesday | 7p – 10p | Mike Zody | Variant Calling Workshop 2022 | House of Prelate | |
| 26 May | Thursday | 9a – 12p | Antoine Limasset and Camille Marchet | Assembly Lecture | Egon Schiele Museum |
| Thursday | 2p – 5p | Antoine Limasset and Camille Marchet | Assembly Lab | House of Prelate | |
| Thursday | 7p – 10p | Guy Leonard | Genomics Adventure | House of Prelate | |
| 27 May | Friday | 9a – 12p | Workshop Team | Intro to R | House of Prelate |
| Friday | 2p – 5p | Malachi Griffith | Genomic Data Visualization and Interpretation Genomic Data Visualization Lab I – Introduction to ggplot2 | House of Prelate | |
| Friday | 7p – 10p | Malachi Griffith | Genomic Data Visualization Lab II – ggplot2 Exercises | House of Prelate | |
| 28 May | Saturday | 9a – 12p | Rayan ChikhI | We’re Gonna Need a Bigger Instance | House of Prelate |
| Saturday | 2p – 4p | Everyone |
Open Lab |
House of Prelate | |
| Saturday | 6p – 10p | Everyone | Town Tour and Dinner | Town Square and The Mill |
Week 2 : 29 May through 4 June, 2022
| Date | Day | Time | Presenter | Topic | Location |
|---|---|---|---|---|---|
| 29 May | Sunday | All Day | Everyone | Free Day | You decide! |
| 30 May | Monday | 9a – 12p | Brian Haas | Transcriptomics Lecture | Egon Schiele Museum |
| Monday | 2p – 5p | Brian Haas | Transcriptomics Lab I | House of Prelate | |
| Monday | 7p – 10p | Brian Haas | Transcriptomics Lab Continued | House of Prelate | |
| 31 May | Tuesday | 9a – 12p | Scott Handley | 16S rRNA Amplicon Survery and Virome Analysis | Egon Schiele Museum |
| Tuesday | 2p – 5p | David Barnett | General lab intro and DADA2 Slides Exercises microViz part 1 – Bar charts and Alpha diversity (using mouse gut study 16S data ASVs from the 2020 workshop) Slides Exercises |
House of Prelate | |
| Tuesday | 7p – 10p | David Barnett | microViz part 2 – Dissimilarity and PCoA (using human birth cohort metagenomic data – metaphlan3 taxonomy only, nothing functional) Slides Exercises microViz part 3 – Abundance transformations (log and CLR), PCA, and Differential abundance testing Slides Exercises |
House of Prelate | |
| 1 June | Wednesday | 9a – 12p | Ilya Korsunsky | Single Cell Transcriptomics | House of Prelate |
| Wednesday | 2p – 5p | Ilya Korsunsky | Single Cell Transcriptomics | House of Prelate | |
| Wednesday | 7p – 10p | Ilya Korsunsky | Single Cell Transcriptomics | House of Prelate | |
| 2 June | Thursday | 9a – 12p | Emiliano Trucchi | Population Genomics Lecture | House of Prelate |
| Thursday | 2p – 5p | Population Genomics Lab 1 | House of Prelate | ||
| Thursday | 7p – 10p | Josephine Paris and Emiliano Trucchi | Population Genomics Lab 2 | House of Prelate | |
| 3 June | Friday | 9a – 12p | Chris Wheat | Lies, Damn Lies and Genomics | Egon Schiele Museum |
| Friday | 2p – 5p | Everyone | Open Lab – Required Attendance (Certificates and T-Shirts will be issued.) Transferring Data | House of Prelate | |
| Friday | 7p – 10p | Everyone | End of Workshop Party | You decide! | |
| 4 June | Saturday | Everyone | Departure |