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bioRxiv · 10.1101/044164

AVOCADO: Visualization of Workflow-Derived Data Provenance for Reproducible Biomedical Research

Holger Stitz·Stefan Luger·Marc Streit·Nils Gehlenborg
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Abstract

A major challenge of data-driven biomedical research lies in the collection and representation of data provenance information to ensure reproducibility of findings. In order to communicate and reproduce multi-step analysis workflows executed on datasets that contain data for dozens or hundreds of samples, it is crucial to be able to visualize the provenance graph at different levels of aggregation. Most existing approaches are based on node-link diagrams, which do not scale to the complexity of typical data provenance graphs. In our proposed approach we reduce the complexity of the graph using hierarchical and motif-based aggregation. Based on user action and graph attributes a modular degree-of-interest (DoI) function is applied to expand parts of the graph that are relevant to the user. This interest-driven adaptive provenance visualization approach allows users to review and communicate complex multi-step analyses, which can be based on hundreds of files that are processed by numerous workflows. We integrate our approach into an analysis platform that captures extensive data provenance information and demonstrate its effectiveness by means of a biomedical usage scenario.

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Holger Stitz, Stefan Luger, Marc Streit, Nils Gehlenborg. 2016-03-18. AVOCADO: Visualization of Workflow-Derived Data Provenance for Reproducible Biomedical Research. https://doi.org/10.1101/044164

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