Collaborative platforms for streamlining workflows in Open Science


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Collaborative platforms for streamlining workflows in Open Science

  1. 1. Collaborative platforms for streamlining workflows in Open ScienceKonrad U. F¨rstner, Gregor Hagedorn, Claudia Koltzenburg, o M. Fabiana Kubke, Daniel Mietchen July 30th, 2011 – OKCon 2011, Berlin
  2. 2. About this work Wiki base version of the manuscript:
  3. 3. Problem: There are many gaps in the scientific process Time consuming and often annoying Loss of information – CC-BY by flick user eirikref
  4. 4. A proposal for improved scientific workflow Seamless transition from bench to publication Based on Virtual Research Environments (VRE) Transparency, reproducibility & reusability Formalization Reputation system included – PD
  5. 5. Conception and project planning Utilizing collective intelligence Management tools can help to handle complex projects – CC-BY by flick user marksurman
  6. 6. Experiments and data generation More automation needed (ideally via Open Hardware) Formal language to design/program experiments – CC-BY by flick user kaibara
  7. 7. Data storage = data release Publish data immediately in a machine-readable form Every entity gets an unique identifiers (⇒ referable) – CC-BY by flick user wilhei
  8. 8. Data analysis Scripting / programming or recording of GUI-tool actions Good examples: Taverna or Galaxy Grid computing if needed / possible – CC-BY by Wimedia Commons user Pastorius
  9. 9. Knowledge generation Again: Collaborative - increase the number of brains involved Again: Formalization - e.g. argument maps which link to results and literature – CC-BY by flick user diana blackwell
  10. 10. Final publication Little effort: linking to the major outcomes and putting them into the scientific context – CC-BY by flickr user yorkjason
  11. 11. Implementation - Technology Most needed building blocks are available (as FLOSS) – “just” need to be connected Open standards needed Domain specific solutions should be created by the communities – CC-BY by flickr user tallkev
  12. 12. Implementation - Reputation Microcontribution ⇒ Microattribution (e.g. ORCID based) – CC-BY by flickr user tallkev
  13. 13. Implementation - Licenses Ideally: Public domain / CC0 (see Panton Principle) – CC-BY by flickr user subcircel
  14. 14. Implementation - Funding Long term aim: Funding agencies require the usage of such Open Science workflows (worked for OA)– CC-BY by flickr user therichbrooks
  15. 15. Dealing with the cultural clash via a gradual approach Proposed infrastructure but with fine granular access control and a smaller number of participants. – source: The Library of Congress
  16. 16. Take home messages in a nut shell All steps of the research process can be represented in / connected to VREs Gaps between the steps are minimized Gain of transparency, reproducibility & reusability Main problems are not technical but cultural/political – CC-BY by flickr user marcoarment
  17. 17. – CC-BY by flick user nateone