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Article: How to test bioinformatics software?

TitleHow to test bioinformatics software?
Authors
KeywordsAutomated testing
Software testing
Quality assurance
Cloud-based testing
Bioinformatics
Issue Date2015
Citation
Biophysical Reviews, 2015, v. 7, n. 3, p. 343-352 How to Cite?
Abstract© 2015, International Union for Pure and Applied Biophysics (IUPAB) and Springer-Verlag Berlin Heidelberg. Bioinformatics is the application of computational, mathematical and statistical techniques to solve problems in biology and medicine. Bioinformatics programs developed for computational simulation and large-scale data analysis are widely used in almost all areas of biophysics. The appropriate choice of algorithms and correct implementation of these algorithms are critical for obtaining reliable computational results. Nonetheless, it is often very difficult to systematically test these programs as it is often hard to verify the correctness of the output, and to effectively generate failure-revealing test cases. Software testing is an important process of verification and validation of scientific software, but very few studies have directly dealt with the issues of bioinformatics software testing. In this work, we review important concepts and state-of-the-art methods in the field of software testing. We also discuss recent reports on adapting and implementing software testing methodologies in the bioinformatics field, with specific examples drawn from systems biology and genomic medicine.
Persistent Identifierhttp://hdl.handle.net/10722/262676
ISSN
2015 SCImago Journal Rankings: 0.791

 

DC FieldValueLanguage
dc.contributor.authorKamali, Amir Hossein-
dc.contributor.authorGiannoulatou, Eleni-
dc.contributor.authorChen, Tsong Yueh-
dc.contributor.authorCharleston, Michael A.-
dc.contributor.authorMcEwan, Alistair L.-
dc.contributor.authorHo, Joshua W.K.-
dc.date.accessioned2018-10-08T02:46:42Z-
dc.date.available2018-10-08T02:46:42Z-
dc.date.issued2015-
dc.identifier.citationBiophysical Reviews, 2015, v. 7, n. 3, p. 343-352-
dc.identifier.issn1867-2450-
dc.identifier.urihttp://hdl.handle.net/10722/262676-
dc.description.abstract© 2015, International Union for Pure and Applied Biophysics (IUPAB) and Springer-Verlag Berlin Heidelberg. Bioinformatics is the application of computational, mathematical and statistical techniques to solve problems in biology and medicine. Bioinformatics programs developed for computational simulation and large-scale data analysis are widely used in almost all areas of biophysics. The appropriate choice of algorithms and correct implementation of these algorithms are critical for obtaining reliable computational results. Nonetheless, it is often very difficult to systematically test these programs as it is often hard to verify the correctness of the output, and to effectively generate failure-revealing test cases. Software testing is an important process of verification and validation of scientific software, but very few studies have directly dealt with the issues of bioinformatics software testing. In this work, we review important concepts and state-of-the-art methods in the field of software testing. We also discuss recent reports on adapting and implementing software testing methodologies in the bioinformatics field, with specific examples drawn from systems biology and genomic medicine.-
dc.languageeng-
dc.relation.ispartofBiophysical Reviews-
dc.subjectAutomated testing-
dc.subjectSoftware testing-
dc.subjectQuality assurance-
dc.subjectCloud-based testing-
dc.subjectBioinformatics-
dc.titleHow to test bioinformatics software?-
dc.typeArticle-
dc.description.naturelink_to_subscribed_fulltext-
dc.identifier.doi10.1007/s12551-015-0177-3-
dc.identifier.scopuseid_2-s2.0-84939488548-
dc.identifier.volume7-
dc.identifier.issue3-
dc.identifier.spage343-
dc.identifier.epage352-
dc.identifier.eissn1867-2469-
dc.identifier.issnl1867-2450-

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