This notebook aims at demonstrating how to leverage workflow provenance (information on data processing chains) with a knowledge graph to produce human and machine -oriented data summaries.** We propose to leverage domain-specific annotation (EDAM ontology) from the bioinformatics tools registry Bio.Tools to automatically annotate workflow processed data in the form of data summaries.
All the process can be reproduced through the 
- Alban Gaignard: [email protected]
- Hala Skaf-Molli: [email protected]
- Khalid Belhajjame: [email protected]
Alban Gaignard, Hala Skaf-Molli and Khalid Belhajjame Findable and Reusable Workflow DataProducts: A Genomic Workflow Case Study. Accepted at Semantic Web Journal 2020. http://www.semantic-web-journal.net/content/findable-and-reusable-workflow-dataproducts-genomic-workflow-case-study
Here are the main steps of this demonstration :
- Knowledge graph loading (With assume that a provenance is already available)
- Machine-oriented provenance mining queries
- Human-oriented provenance mining queries
Here is an example of the generated human-oriented data summaries.
...
The file Samples/Sample1/BAM/Sample1.realign.bai results from
tool gatk2_indel_realigner-IP which Locally align two or more molecular
sequences.
It was produced in the context of Rare Coding Variants in ANGPTL6 Are
Associated with Familial Forms of Intracranial Aneurysm
...
