Scikick: A sidekick for workflow clarity and reproducibility during extensive data analysis

Reproducibility is crucial for scientific progress, yet a clear research data analysis workflow is challenging to implement and maintain. As a result, a record of computational steps performed on the data to arrive at the key research findings is often missing. We developed Scikick, a tool that ease...

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Published inPloS one Vol. 18; no. 7; p. e0289171
Main Authors Carlucci, Matthew, Bareikis, Tadas, Koncevičius, Karolis, Gibas, Povilas, Kriščiūnas, Algimantas, Petronis, Art, Oh, Gabriel
Format Journal Article
LanguageEnglish
Published United States Public Library of Science 27.07.2023
Subjects
Analysis
Archives & records
Automation
Biology and life sciences
Computer and Information Sciences
Computer applications
Configurations
Data analysis
Data mining
Datasets
Engineering and Technology
Evaluation
Information management
Reproducibility
Research and Analysis Methods
Software
Workflow
United States
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Summary:Reproducibility is crucial for scientific progress, yet a clear research data analysis workflow is challenging to implement and maintain. As a result, a record of computational steps performed on the data to arrive at the key research findings is often missing. We developed Scikick, a tool that eases the configuration, execution, and presentation of scientific computational analyses. Scikick allows for workflow configurations with notebooks as the units of execution, defines a standard structure for the project, automatically tracks the defined interdependencies between the data analysis steps, and implements methods to compile all research results into a cohesive final report. Utilities provided by Scikick help turn the complicated management of transparent data analysis workflows into a standardized and feasible practice. Scikick version 0.2.1 code and documentation is available as supplementary material. The Scikick software is available on GitHub ( https://github.com/matthewcarlucci/scikick ) and is distributed with PyPi ( https://pypi.org/project/scikick/ ) under a GPL-3 license.
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Competing Interests: The authors have declared that no competing interests exist.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0289171