Pragmatic Software Reuse in Bioinformatics: How Can Social Network Information Help?

Jin, Xiaoyu; Khatwani, Charu; Niu, Nan; Wagner, Michael; Savolainen, Juha

doi:10.1007/978-3-319-35122-3_17

Cited by 8 publications

(3 citation statements)

References 26 publications

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“…The population that our study intends to impact are end-user developers. We select bioinformatics researchers who develop biomedical software as target group of end-user developers [1,14]. Twenty participants took part in our experiment (12 male and 8 female; 18 graduate students and 2 staff researchers).…”

Section: Participantsmentioning

confidence: 99%

“…Our recent work [14] classifies the questions asked by end-user developers during the change tasks into five categories: problem understanding, problem solving, change implementation, component and structure, and software infrastructure. The idea behind the five categories is that there are two ends of questions; one is about domain concept of a problem to be solved, the other is about the architecture of the software program solving this problem.…”

Section: ) Information Needs Concerning Software Architecturementioning

confidence: 99%

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On the impact of social network information diversity on end-user programming productivity: a foraging-theoretic study

Jin

Niu

Wagner

2016

Proceedings of the 8th International Workshop on Social Software Engineering

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Social network information (SNI) plays an important role in providing hints to help facilitate daily software engineering tasks, especially for end-user programmers. Social information foraging theory quantitatively predicts the effect of diversity of hints on productivity. In this paper, we explore how to best leverage this theoretical prediction to support software change tasks. Specifically, we analyze the data from an observational study involving 20 bioinformatics researchers using SNI to solve software change tasks. We further classify the SNI support by using 5 diversity categories: social network type (e.g., wiki, Q&A, etc.), contributor role (e.g., core, marginal, etc.), number of contributors, information needs concerning software architecture, and information needs organized by complexity. Our results show that the contributor role best manifests the hint diversity, and its incorporation with architectural considerations could further improve productivity. Our research offers principled guidelines for supporting better use of SNI in end-user programming.

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Section: Participantsmentioning

confidence: 99%

Section: ) Information Needs Concerning Software Architecturementioning

confidence: 99%

On the impact of social network information diversity on end-user programming productivity: a foraging-theoretic study

Jin

Niu

Wagner

2016

Proceedings of the 8th International Workshop on Social Software Engineering

Self Cite

View full text Add to dashboard Cite

show abstract

“…The design, implementation, and execution of computational tools is critical to the understanding of large datasets. Increasing attention is being paid to various facets surrounding computational research, including reproducibility [1, 2], reusability [3, 4], and open source efforts and community building [5, 6]. Previous resources [7–9] have provided useful recommendations for beginning research software development and are recommended reading.…”

Section: Introductionmentioning

confidence: 99%

Software engineering for scientific big data analysis

et al. 2019

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The increasing complexity of data and analysis methods has created an environment where scientists, who may not have formal training, are finding themselves playing the impromptu role of software engineer. While several resources are available for introducing scientists to the basics of programming, researchers have been left with little guidance on approaches needed to advance to the next level for the development of robust, large-scale data analysis tools that are amenable to integration into workflow management systems, tools, and frameworks. The integration into such workflow systems necessitates additional requirements on computational tools, such as adherence to standard conventions for robustness, data input, output, logging, and flow control. Here we provide a set of 10 guidelines to steer the creation of command-line computational tools that are usable, reliable, extensible, and in line with standards of modern coding practices.

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Testing software’s changing features with environment-driven abstraction identification

et al. 2022

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ions are significant domain terms that have assisted in requirements elicitation and modeling. To extend the assistance toward requirements validation, we present in this paper an automated approach to identifying the abstractions for supporting requirements-based testing. We select relevant Wikipedia pages to serve as a domain corpus that is independent from any specific software system. We further define five novel patterns based on part-of-speech tagging and dependency parsing, and frame our candidate abstractions in the form of pairs for better testability, where the “key” helps locate “what to test”, and the “value” helps guide “how to test it” by feeding in concrete data. We evaluate our approach with six software systems in two application domains: Electronic health records and Web conferencing. The results show that our abstractions are more accurate than those generated by a state-of-the-art technique. While the initial findings indicate our abstractions’ capabilities of revealing bugs and matching the environmental assumptions created manually, we articulate a new way to perform requirements-based testing by focusing on a software system’s changing features. Specifically, we hypothesize that the same feature would behave differently under a pair of opposing environmental conditions and assess our abstractions’ applicability to this new form of feature testing.

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Pragmatic Software Reuse in Bioinformatics: How Can Social Network Information Help?

Cited by 8 publications

References 26 publications

On the impact of social network information diversity on end-user programming productivity: a foraging-theoretic study

On the impact of social network information diversity on end-user programming productivity: a foraging-theoretic study

Software engineering for scientific big data analysis

Testing software’s changing features with environment-driven abstraction identification

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