SPARQL query (in a file) on graph database

public public 1yr ago Version: Version 2 0 bookmarks
Loading...

License: CC0-1.0

The demos of the FAIRness (e.g. digital resources automatically found and reused by machines) for the WP6 of the EU Horizon 2020 EOSC-Life project.

A demo of the FAIRness of data

A taverna workflow to demonstrate the FAIRness with specific data, i.e. the mappings between the terms of two standard medical ontologies, through FAIR Data Points .

An extension of Data Catalog Vocabulary ( DCAT2 ) with a couple of new dcat:Resource types, including mapping and workflow, is used in the demo. A RDF file with mappings between SNOMED terms to ORDO terms are generated beforehand via SPARQL query on the Mondo Disease Ontology ( Mondo ) using RDFLib . The Simple Standard for Sharing Ontology Mappings ( SSSOM ) is used to form each mapping in a repository of mappings.

A demo of the FAIRness of workflows

A CWL workflow composed of multiple single-function CWL workflows (for getting RO-Crate hosted on WorkflowHub, extracting the target workflow from RO-Crate, then executing it) to demonstrate the FAIRness of specific workflow, i.e. the workflow for finding and reusing the mappings between the SNOMED terms and ORDO terms, through WorkflowHub .

Licenses

Project Scripts under this folder and recursive subfolders are licensed under the terms of the MIT License . Project Data under this folder and recursive subfolders are licensed under the terms of the CC0 License .

Code Snippets

 5
 6
 7
 8
 9
10
11
12
13
14
15
16
17
baseCommand: [curl, -d]
inputs:
  query_file:
    type: File
    inputBinding:
      position: 1
      prefix: '@'
      separate: false

  endpoint:
    type: string
    inputBinding:
      position: 2
ShowHide 1 more snippets with no or duplicated tags.

Login to post a comment if you would like to share your experience with this workflow.

Do you know this workflow well? If so, you can request seller status , and start supporting this workflow.

Free

Created: 1yr ago
Updated: 1yr ago
Maitainers: public
URL: https://github.com/longmanplus/EOSC-Life_demos
Name: sparql-query-in-a-file-on-graph-database
Version: Version 2
Badge:
workflow icon

Insert copied code into your website to add a link to this workflow.

Downloaded: 0
Copyright: Public Domain
License: Boost Software License 1.0
  • Future updates

Related Workflows

cellranger-snakemake-gke
snakemake workflow to run cellranger on a given bucket using gke.
A Snakemake workflow for running cellranger on a given bucket using Google Kubernetes Engine. The usage of this workflow ...