Enhanced reproducibility of SADI web service workflows with Galaxy and Docke

Engaña Aranguren, Mikel and Wilkinson, M. (2015). Enhanced reproducibility of SADI web service workflows with Galaxy and Docke. "Giga Science", v. 4 (n. 59); pp. 1-9. ISSN 2047-217X. https://doi.org/10.1186/s13742-015-0092-3.

Description

Title: Enhanced reproducibility of SADI web service workflows with Galaxy and Docke
Author/s:
  • Engaña Aranguren, Mikel
  • Wilkinson, M.
Item Type: Article
Título de Revista/Publicación: Giga Science
Date: 2015
ISSN: 2047-217X
Volume: 4
Subjects:
Faculty: Centro de Investigación en Biotecnología y Genómica de Plantas (CBGP) (UPM)
Department: Biotecnología - Biología Vegetal
Creative Commons Licenses: Recognition - No derivative works - Non commercial

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Abstract

Background: Semantic Web technologies have been widely applied in the life sciences, for example by data providers such as OpenLifeData and through web services frameworks such as SADI. The recently reported OpenLifeData2SADI project offers access to the vast OpenLifeData data store through SADI services. Findings: This article describes how to merge data retrieved from OpenLifeData2SADI with other SADI services using the Galaxy bioinformatics analysis platform, thus making this semantic data more amenable to complex analyses. This is demonstrated using a working example, which is made distributable and reproducible through a Docker image that includes SADI tools, along with the data and workflows that constitute the demonstration. Conclusions: The combination of Galaxy and Docker offers a solution for faithfully reproducing and sharing complex data retrieval and analysis workflows based on the SADI Semantic web service design patterns.

More information

Item ID: 40479
DC Identifier: http://oa.upm.es/40479/
OAI Identifier: oai:oa.upm.es:40479
DOI: 10.1186/s13742-015-0092-3
Official URL: https://academic.oup.com/gigascience/article/4/1/s13742-015-0092-3/2707781
Deposited by: Memoria Investigacion
Deposited on: 13 May 2016 14:51
Last Modified: 05 Jun 2019 13:38
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