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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Veröffentlicht in:PloS one 2023-07, Vol.18 (7), p.e0289171-e0289171
Hauptverfasser: Carlucci, Matthew, Bareikis, Tadas, Koncevičius, Karolis, Gibas, Povilas, Kriščiūnas, Algimantas, Petronis, Art, Oh, Gabriel
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container_end_page e0289171
container_issue 7
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container_title PloS one
container_volume 18
creator Carlucci, Matthew
Bareikis, Tadas
Koncevičius, Karolis
Gibas, Povilas
Kriščiūnas, Algimantas
Petronis, Art
Oh, Gabriel
description 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.
doi_str_mv 10.1371/journal.pone.0289171
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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
title Scikick: A sidekick for workflow clarity and reproducibility during extensive data analysis
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