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2024 Galaxy Community Conference (GCC2024)

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Programme

The programme is where you can discover what’s happening when at GCC2024.

  • Beginning: 24 June 2024
  • End: 29 June 2024

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Monday

24. 6. 2024

8:30 - 9:30 Registration

Hotel International - Lobby

8:30 - 8:45 Open and welcome

Rooms BCD

8:45 - 9:45 Keynote by Jana Klánová

Rooms BCD

9:45 - 10:10 Morning break

Atrium

10:10 - 12:00 Talks (1 track)

Rooms BCD

 

BioDigs: a GDSCN Project; Tyler Collins, Alex Ostrovsky

Galaxy activities in Czech Republic; Miroslav Ruda, Aleš Křenek

Galaxy-ML2: Simple, Powerful, and Robust Machine Learning Tools for Galaxy; Junhao Qui, et al.

Community Lightning Talks: SPOC, GGA, SSA, Imaging, & GCB; Wendi Bacon, et al.

Empowering Users to Bring Their Own Storage; John Chilton

A Galaxy Workflow Developer's Companion in your Browser; David López

Driving Decisions with Data: Introducing the Key Usage Indicators (KUI) for Galaxy Project Governance; Enis Afgan, Nuwan Goonasekera

The AquaINFRA platform: A research data infrastructure for marine and inland waters; Markus Konkol, et al.

Developing Interactive Neutron Science Applications using Galaxy; Sergey Yakubov, et al.

ABRomics: a Galaxy-based One Health Antimicrobial Resistance Platform; Pierre Marin, et al.

12:00 - 13:00 Lunch

Restaurant Lucullus

13:00 - 14:00 Trainings I

Rooms B, C, D, M1, M2

14:00 - 16:00 Posters + coffee

Rooms BCD

16:00 - 18:00 Trainings II

Rooms B, C, D, M1, M2

18:00 - 19:00 Birds of a Feather

Rooms B, C, D, M1, M2

Tuesday

25. 6. 2024

8:30 - 9:45 Community update talk

Rooms BCD

9:45 - 10:10 Morning break

Atrium

10:10 - 12:00 Talks (2 tracks)

Rooms BC, D

 

Analysis track

Genomics and transcriptomics of Fusarium musae from human and banana; Luca Degradi, et al.

MAdLand computational resources through Galaxy; Deepti Varshney, et al.

Genomic and evolutionary analysis of the cytochrome P450 gene family in a ground -herb of Amazonian riparian forests with a waterflooding gradient; Luca Degradi, et al.

The Galaxy Platform: Applications to Catalysis Workflows; Patrick Austin, et al.

A Toolset for Building and Simulating Transmembrane Proteins in Galaxy; Bryan Raubenolt, Jayadev Joshi, Daniel Blankenberg

Ab-initio Semi-Empirical Mass Spectra Predictions with Galaxy; Wudmir Rojas, et al.

Bridging the Gap: A Systematic Workflow to Convert Low-Resolution GC-MS Libraries to High-Resolution in Silico for Enhanced Chemical Profiling; Zargham Ahmad, et al.

Automated Reference Genome Assembly in Galaxy - An Update; Delphine Larivière, et al.

Long-read genomes from diverse outbred dogs; Tyler Collins, Alex Ostrovsky

Using Galaxy and Integrated Genome Browser to study tardigrade biology; Paige Kulzer, Nowlan Freese, Ann Loraine

 

Enablement track: workflows & administration

Visualizing Workflow Runs in Galaxy: The Graph View for Workflow Invocations; Ahmed Awan

Upgrading User Experience: Introducing the New Galaxy UI; Aysam Guerler, et al.

Enhanced Workflow Management in Galaxy; Alireza Heidari, Laila Los, Aysam Guerler

Maintaining and improving a large collection of workflows; Marius van den Beek

PathoGFAIR: FAIR Workflows for Pathogen Detection & Samples Comparison; Engy Nasr, et al.

Data access architecture at "Galactic" scale: what's new and what's next; John Davis

Galaxy CoDex for finding tools, workflows, and training; Bérénice Batut

DevOps techniques for developing and integrating tools in Galaxy; Serena Lorenzini, Giuseppe Profiti

Metascheduling with TPV: Weighting jobs on multiple constraints for distributed deployment over local and remote resources; Catherine Bromhead, Justin Lee, Nuwan Goonasekera

Integrating OGC API services into Galaxy; Markus Konkol, Alexander Pilz

12:00 - 13:00 Lunch

Restaurant Lucullus

13:00 - 14:00 Trainings I

Rooms B, C, D, M1, M2

14:00 - 16:00 Posters + coffee

Rooms BCD

16:00 - 18:00 Trainings II

Rooms B, C, D, M1, M2

18:00 - 19:00 Birds of a Feather

Rooms B, C, D, M1, M2

18:30 - 21:30 Free visits to the Mendel Museum

Mendel Square - Augustinian Abbey, Mendel Museum

19:30 - 22:30 Conference dinner

Mendel Square - Augustinian Abbey

Wednesday

26. 6. 2024

8:30 - 8:45 Overview of activities on Wednesday afternoon

Rooms BCD

8:45 - 9:45 Keynote by Ute Gunsenheimer

Rooms BCD

8:45 - 10:10 Morning break

Atrium

10:10 - 10:30 Gold sponsor talk: JXTX Foundation

Rooms BCD

10:30 - 12:00 Panel discussion

Rooms BCD

12:00 - 12:10 Group photograph

Atrium

12:10 - 13:00 Lunch box

13:45 - 14:00 Meeting for Don's Walk

Hotel International

14:00 - 16:00 Don's Walk

14:20 - 14:30 1st group - Meeting for tour of Villa Tugendhat

Villa Tugendhat - Černopolní 45

14:30 - 15:30 1st group - Tour of Villa Tugendhat

Villa Tugendhat - Černopolní 45

14:50 - 15:00 2nd group - Meeting for tour of Villa Tugendhat

Villa Tugendhat - Černopolní 45

15:00 - 16:00 2nd group - Tour of Villa Tugendhat

Villa Tugendhat - Černopolní 45

15:50 - 16:00 Meeting for guided walking tour of Brno

Moravian square - Jobst statue

16:00 - 18:00 Guided walking tour of Brno

Thursday

27. 6. 2024

8:30 - 8:45 Feedback session

Rooms BCD

8:45 - 9:45 Keynote by Daria Onichtchouk

Rooms BCD

9:45 - 10:10 Morning break

Atrium

10:10 - 12:00 Talks (2 tracks)

Rooms BC, D

 

Analysis track

Navigating the variant landscape: integrating MAVE data analysis into Galaxy; Polina Polunina

A Galaxy-based immunopeptidogenomic pipeline for neoantigen discovery; Subina Mehta, et al.

Clinical metaproteomics workflow to study host-microbiome dynamics; Katherine Do, et al.

MitoLink2.0: A generic integrated web-based workflow system to evaluate genotype-phenotype correlations in human mitochondrial diseases; Shweta Pandey, et al.

Persist-seq: a set of reproducible single cell RNA-seq analysis pipelines for understanding early persister cells in cancer; Pablo Moreno, et al.

Viral pathogen data analysis with Galaxy; Wolfgang Maier, et al.

FAIR viral quasispecies reconstruction from short reads - possibilities and limitations; Stephen Shank, et al.

BREW3R - a workflow to get more reads in genes in 3'-end sequencing methods; Lucille Lopez-Delisle, Denis Duboule

Reconstructing cell type specification trajectories in the last common animal ancestor; Natalia E Padillo-Anthemides

Structural annotation of repeated regions in the Psidium guajava L. genome and development of molecular markers for regulatory regions; Giovanna Pinto Pires, et al.

 

Enablement track: outreach & automation

Updates from the Global Galaxy Training Network (GTN); Saskia Hiltemann, Helena Rasche, Bérénice Batut

Communication Strategies and Community Engagement in the Galaxy Project: Exploring Current Practices and Future Opportunities; Natalie Whitaker-Allen

Addressing user needs in single-cell analysis; internship and obstacles; Morgan Howells, et al.

Galaxy as a Gateway to Bioinformatics: an updated scRNA-seq analysis training suite; Julia Jakiela, et al.

Image Analysis in Galaxy: Recent Developments and Highlights; Leonid Kostrykin, Karl Rohr

Interactivity as a tool power-up – Interactive Client Tools reimplemented in the frontend; Sveinung Gundersen, Morten Johansen

TES job submission and streamlined data transfers; Aleš Křenek, et al.

Community-driven standards development for reference genome generation; Tom Brown, et al.

UseGalaxy France: an example of a national UseGalaxy server; Anthony Bretaudeau, et al.

"Smarter" job scheduling using user provided infrastructure; Paul De Geest, Frederik Coppens, Sebastian Luna-Valero

12:00 - 13:00 Lunch

Restaurant Lucullus

13:00 - 14:00 Trainings I

Rooms B, C, D, M1, M2

14:00 - 14:30 Afternoon break

Atrium

14:30 - 16:30 Trainings II

Rooms B, C, D, M1, M2

16:30 - 17:30 Talks (single track) & conference closing

Rooms BCD

 

Pairing Data Analysis Methods with Sequencing Products to Meet Scientist’s Needs. What Do People Want?; Adrian Reich, Ariel Erijman, Bradley Langhorst

Astronomy in Galaxy; Denys Savchenko, et al.

Estimating Cloud Computing Costs when Running Bioinformatics Workloads; Enis Afgan, et al.

Community-Building Initiatives in Bioconductor; Maria Doyle

17:30 - 19:00 Birds of a Feather

Rooms B, C, D, M1, M2

Friday

28. 6. 2024

8:00 - 16:00 CollaborationFest

KUMST - Údolní 19

Saturday

29. 6. 2024

8:00 - 16:00 CollaborationFest

KUMST - Údolní 19

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