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The 2017 Galaxy Community Conference (GCC2017) is being held in Montpellier, France, 26-30 June.  GCC2017 will include keynotes and accepted talks, poster sessions, demos, birds-of-a-feather meetups, exhibitors, and plenty of networking opportunities. There will also be three days of pre-conference activities, including hackathons and training. If you work in data-intensive biomedical research, there is no better place than GCC2017 to present your work and to learn from others.
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Friday, June 30 • 11:30 - 11:50
The RNA Workbench - reproducible, transparent, and accessible RNA research

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Slides

Authors

Florian Eggenhofer, University of Freiburg (ALU)
Jörg Fallmann, University of Leipzig
Björn Grüning, University of Freiburg (ALU), Center for Biological Systems Analysis (ZBSA)  
Bérénice Batut, University of Freiburg (ALU)  
Peter Stadler, University of Leipzig, Institute for Theoretical Chemistry (TBI), Max Planck Institute for Mathematics in the Sciences (MPI)  
Rolf Backofen, University of Freiburg (ALU), Center for Biological Systems Analysis (ZBSA), Centre for Biological Signaling Studies [Freiburg] (BIOSS)


Abstract
RNA centric research is of growing importance for medicine and molecular biology. Increasing amounts of data from deep sequencing experiments create a demand for automatic analysis and interpretation solutions.

The RNA-Workbench offers a wide range of tools covering classic RNA-bioinformatics as well as RNA-seq fields. Predefined workflows for the annotation of non-coding RNAs or identification of differentially expressed genes are subsets of over 50 included tools from the categories RNA structure analysis, RNA alignment, RNA annotation, RNA-protein interaction, ribosome profiling, RNA-seq analysis and RNA target prediction. RNA specific visualisation solutions for dot-bracket plots and secondary structures are part of the workbench.

In contrast to pre-existing solutions, our community driven approach allowes us to include classic RNA-bioinformatics tools often with the direct support of the tool-authors. These contributions enable us to provide excellent documentation, training material and interactive tours demonstrating the functionality of the workbench.

Building on the Galaxy framework the workbench offers sophisticated analyses to users without command line knowledge, while emphasising reproducibility, customization and effortless scale up to larger infrastructures. The workbench is implemented as Galaxy Docker flavour and therefore easily extendable by additional tools, workflows, tours or training data, that can be installed from the Galaxy ToolShed. The workbench will be further improved and maintained in an ongoing community effort.


Presenters
avatar for Florian Eggenhofer

Florian Eggenhofer

Postdoc, University of Freiburg (ALU)
University of Freiburg (ALU)



Friday June 30, 2017 11:30 - 11:50
Einstein Auditorium Le Corum, Level 0

Attendees (19)