GCC2019 has ended
The 2019 Galaxy Community Conference (GCC2019) was held in Freiburg, Germany, 1-8 July.  There was one day of training, three days of mixed meeting and training, and then two to four days of CollaborationFest.  The meeting featured joint & parallel sessions; invited, accepted, and lightning talks; poster and demo sessions; birds-of-a-feather meetups; social events; and training sessions every day.

Thanks to everyone who helped make GCC2019 a success!
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Tuesday, July 2 • 15:50 - 17:20
Metatranscriptomics and multi-omics functional microbiome analysis

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This training session has a Gitter channel where preparation instructions are posted, and for class discussion, last minute links, and more.

Training Material for this workshop:

Functional microbiome analysis which estimates the functional groups expressed by microbial community, enables researchers to look beyond taxonomic composition and correlation with the condition under study. Using microbial community RNASeq data and subsequent metatranscriptomics workflows to elucidate the functional complement of the microbiome is gaining interest in the field.

The training workshop will introduce researchers to the basic concepts and tools from the published ASaiM workflow (Batut et al, GigaScience (2018), 7 (6), http://dx.doi.org/10.1093/gigascience/giy057). Attendees will also be able to run the workflow on small test datasets. Lastly, workshop trainers will update attendees of latest developments in galaxy tools and workflows for functional microbiome and multi-omics analysis.

  • Introduction to Functional Microbiome and multi-omics analysis
    • Introduction to functional microbiome analysis.
    • Metagenomics, metatranscriptomics and metaproteomics methods
    • Inputs for the metatranscriptomics GTN training
  • Metatranscriptomics analysis using ASaiM workflow Part 1
    • Inputs and tools used in ASaiM workflow
    • Running the ASaiM workflow
  • Metatranscriptomics analysis using ASaiM workflow Part 2
    • Understanding the outputs from the ASaiM workflow
  • Discussion and Q&A about functional microbiome and multi-omics analysis
    • Recent advances in Galaxy workflows
    • Q&A from attendees and future directions.

  • Basic knowledge and interest in microbiome analysis.
  • Introduction to Galaxy or equivalent experience
  • A wi-fi enabled laptop with a modern web browser. Google Chrome, Firefox and Safari will work best

TIaaS URL for this training: https://usegalaxy.eu/join-training/gcc-metatranscriptomics

avatar for Timothy J. Griffin

Timothy J. Griffin

Professor, University of Minnesota
avatar for Bérénice Batut

Bérénice Batut

Post-doc, University of Freiburg
avatar for Ray Sajulga

Ray Sajulga

University of Minnesota
avatar for Pratik Jagtap

Pratik Jagtap

Research Assistant Professor, University of Minnesota
Metaproteomics . DIA . Proteogenomics

Tuesday July 2, 2019 15:50 - 17:20 CEST