Mar 18, 2016

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

BioRxiv : the Preprint Server for Biology
H StitzN Gehlenborg

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.

  • References
  • Citations

References

  • We're still populating references for this paper, please check back later.
  • References
  • Citations

Citations

  • This paper may not have been cited yet.

Mentioned in this Paper

Avocado
Aggregation
Protein Aggregation, Pathological
Protein Domain
Avocado allergenic extract
Avocado preparation
Avocado oil
Analysis
Persea americana
Biomedicine

About this Paper

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.

Bioinformatics in Biomedicine (Preprints)

Bioinformatics in biomedicine incorporates computer science, biology, chemistry, medicine, mathematics and statistics. Discover the latest preprints on bioinformatics in biomedicine here.

Related Papers

Computer Graphics Forum : Journal of the European Association for Computer Graphics
H StitzN Gehlenborg
IEEE Transactions on Visualization and Computer Graphics
James AbelloHans-Jörg Schulz
IEEE Computer Graphics and Applications
Wolfgang BuschelRaimund Dachselt
IEEE Transactions on Visualization and Computer Graphics
Frank van Ham, Adam Perer
© 2020 Meta ULC. All rights reserved