Reporting Tools & Workflows

Objectives

This work package aims to facilitate the communication of advanced statistical analyses of high-volume, integrative personal ‘omics data, produced by a bioinformatician/statistician, to clinician-scientists. We will develop methods and instruments to routinely capture and report data analytic work products, especially those from WP1-7, in ways that allow informed decision-making by non-computational collaborators. These workflows will be made available to IT professionals and clinician / scientists as a turn-key web-based platform-as-a-service.

Our primary goal is statistically informed presentation of derived results, e.g., the incorporation of the (un)certainty and reasoning associated with an integrative data analysis result. A second goal is to lead clinician-scientists through complicated integrative analyses via guided, friendly workflows, so they can arrive at statistically informed decisions. A third goal is third-party reproducibility of the analysis and workflow. The pillars of our approach include (a) principles derived from ‘literate programming’ [Fomel, Comp. Sci._Eng. 2009] that embed (e.g., invisible to the clinician scientist but accessible to the computational biologist) the actual computation into a rich textual and graphical description of the workflow; (b) development and use of effective visualization and presentation tools that fully convey statistical nuances and strengths and limitations of the analytic approaches adopted by the workflow, but at the same time are intuitive and attractive to read; and (c) accessible (i.e., web browser based, using no extra client software) and interactive presentation of workflows, supported as needed by databases and calculations on the data (either in the browser (JavaScript) or on the server) as the clinician-scientist interacts with the workflow.

Participating partners

  • Roswell Park Cancer Institute, Buffalo (Lead Partner)
  • BeDataDriven, The Hague (Lead Partner)
  • European Molecular Biology Laboratory, Heidelberg
  • ETH Zurich
  • University of Cambridge
  • Technische Universität München
  • Instituto de Engenharia Mecânica, Lisbon