Constraint-guided workflow composition based on the EDAM ontology

Anna Lena Lamprecht; Stefan Naujokat; Bernhard Steffen; Tiziana Margaria

Constraint-guided workflow composition based on the EDAM ontology

Anna Lena Lamprecht, Stefan Naujokat, Bernhard Steffen, Tiziana Margaria

Research output: Contribution to journal › Conference article › peer-review

Abstract

Methods for the automatic composition of services into executable workflows need detailed knowledge about the application domain, in particular about the available services and their behavior in terms of input/output data descriptions. In this paper we discuss how the EMBRACE data and methods ontology (EDAM) can be used as background knowledge for the composition of bioinformatics workflows. We show by means of a small example domain that the EDAM knowledge facilitates finding possible workflows, but that additional knowledge is required to guide the search towards actually adequate solutions. We illustrate how the ability to flexibly formulate domain-specific and problem-specific constraints supports the workflow development process.

Original language	English
Journal	CEUR Workshop Proceedings
Volume	698
Publication status	Published - 2010
Externally published	Yes
Event	Workshop on Semantic Web Applications and Tools for Life Sciences 2010, SWAT4LS 2010 - Berlin, Germany Duration: 10 Dec 2010 → 10 Dec 2010

Cite this

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title = "Constraint-guided workflow composition based on the EDAM ontology",

abstract = "Methods for the automatic composition of services into executable workflows need detailed knowledge about the application domain, in particular about the available services and their behavior in terms of input/output data descriptions. In this paper we discuss how the EMBRACE data and methods ontology (EDAM) can be used as background knowledge for the composition of bioinformatics workflows. We show by means of a small example domain that the EDAM knowledge facilitates finding possible workflows, but that additional knowledge is required to guide the search towards actually adequate solutions. We illustrate how the ability to flexibly formulate domain-specific and problem-specific constraints supports the workflow development process.",

author = "Lamprecht, {Anna Lena} and Stefan Naujokat and Bernhard Steffen and Tiziana Margaria",

year = "2010",

language = "English",

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AU - Lamprecht, Anna Lena

AU - Naujokat, Stefan

AU - Steffen, Bernhard

AU - Margaria, Tiziana

PY - 2010

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N2 - Methods for the automatic composition of services into executable workflows need detailed knowledge about the application domain, in particular about the available services and their behavior in terms of input/output data descriptions. In this paper we discuss how the EMBRACE data and methods ontology (EDAM) can be used as background knowledge for the composition of bioinformatics workflows. We show by means of a small example domain that the EDAM knowledge facilitates finding possible workflows, but that additional knowledge is required to guide the search towards actually adequate solutions. We illustrate how the ability to flexibly formulate domain-specific and problem-specific constraints supports the workflow development process.

AB - Methods for the automatic composition of services into executable workflows need detailed knowledge about the application domain, in particular about the available services and their behavior in terms of input/output data descriptions. In this paper we discuss how the EMBRACE data and methods ontology (EDAM) can be used as background knowledge for the composition of bioinformatics workflows. We show by means of a small example domain that the EDAM knowledge facilitates finding possible workflows, but that additional knowledge is required to guide the search towards actually adequate solutions. We illustrate how the ability to flexibly formulate domain-specific and problem-specific constraints supports the workflow development process.

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M3 - Conference article

AN - SCOPUS:84890370822

SN - 1613-0073

VL - 698

JO - CEUR Workshop Proceedings

JF - CEUR Workshop Proceedings

T2 - Workshop on Semantic Web Applications and Tools for Life Sciences 2010, SWAT4LS 2010

Y2 - 10 December 2010 through 10 December 2010

ER -

Constraint-guided workflow composition based on the EDAM ontology

Abstract

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