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Discovering Scientific Workflows: The myExperiment Benchmarks

Discovering Scientific Workflows: The myExperiment Benchmarks
Discovering Scientific Workflows: The myExperiment Benchmarks
Automation in science is increasingly marked by the use of workflow technology. The sharing of workflows through publication mechanisms or repositories supports the verifiability, reproducibility and extensibility of computational experiments. However, the subsequent discovery of workflows remains a challenge, both from a technological and sociological viewpoint. We investigate current practices in workflow sharing, re-use and discovery amongst life scientists chiefly using the Taverna workflow management system. The study draws on two key sources: (i) a survey of researchers drawn from 19 research labs and (ii) an analysis of scientists’ behaviour on the myExperiment social network site, designed to encourage workflow exchange. The results reveal a multi-modal approach to workflow discovery, based on a mix of search on the content of the workflow and its situated context. We go on to develop a benchmark specifically for the evaluation of workflow discovery and to demonstrate it on two example approaches.
Scientific Workflow, Bioinformatics, myExperiment
s.n.
Goderis, Antoon
ec60782c-4361-4ee3-85a7-379aeca96a67
De Roure, David
02879140-3508-4db9-a7f4-d114421375da
Goble, Carole
8c248c0f-f19e-4dda-838b-77a89c5d3d38
Bhagat, Jiten
1e8928a8-3b30-443f-a099-a29a92139e48
Cruickshank, Don
ed6ae18a-bcee-4a0b-86af-7a10e0f219ee
Fisher, Paul
4c277313-566a-48dc-8b37-bff860c32904
Michaelides, Danius
a6df5175-d71a-4cd4-befc-26c48235fb92
Tanoh, Franck
8ff77403-306d-48df-8b75-59c6cbed68de
Goderis, Antoon
ec60782c-4361-4ee3-85a7-379aeca96a67
De Roure, David
02879140-3508-4db9-a7f4-d114421375da
Goble, Carole
8c248c0f-f19e-4dda-838b-77a89c5d3d38
Bhagat, Jiten
1e8928a8-3b30-443f-a099-a29a92139e48
Cruickshank, Don
ed6ae18a-bcee-4a0b-86af-7a10e0f219ee
Fisher, Paul
4c277313-566a-48dc-8b37-bff860c32904
Michaelides, Danius
a6df5175-d71a-4cd4-befc-26c48235fb92
Tanoh, Franck
8ff77403-306d-48df-8b75-59c6cbed68de

Goderis, Antoon, De Roure, David, Goble, Carole, Bhagat, Jiten, Cruickshank, Don, Fisher, Paul, Michaelides, Danius and Tanoh, Franck (2008) Discovering Scientific Workflows: The myExperiment Benchmarks s.n. (Submitted)

Record type: Monograph (Project Report)

Abstract

Automation in science is increasingly marked by the use of workflow technology. The sharing of workflows through publication mechanisms or repositories supports the verifiability, reproducibility and extensibility of computational experiments. However, the subsequent discovery of workflows remains a challenge, both from a technological and sociological viewpoint. We investigate current practices in workflow sharing, re-use and discovery amongst life scientists chiefly using the Taverna workflow management system. The study draws on two key sources: (i) a survey of researchers drawn from 19 research labs and (ii) an analysis of scientists’ behaviour on the myExperiment social network site, designed to encourage workflow exchange. The results reveal a multi-modal approach to workflow discovery, based on a mix of search on the content of the workflow and its situated context. We go on to develop a benchmark specifically for the evaluation of workflow discovery and to demonstrate it on two example approaches.

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More information

Submitted date: 30 April 2008
Keywords: Scientific Workflow, Bioinformatics, myExperiment
Organisations: Web & Internet Science

Identifiers

Local EPrints ID: 265662
URI: http://eprints.soton.ac.uk/id/eprint/265662
PURE UUID: 0757d639-b07d-4e6d-871c-38846737da87
ORCID for David De Roure: ORCID iD orcid.org/0000-0001-9074-3016
ORCID for Don Cruickshank: ORCID iD orcid.org/0000-0002-0777-0855

Catalogue record

Date deposited: 02 May 2008 06:26
Last modified: 25 Sep 2020 01:33

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