Title

Embedding Containerized Workflows Inside Data Science Notebooks Enhances Reproducibility

Publication Date

5-2-2018

Document Type

Article

Abstract

Data science notebooks, such as Jupyter, combine text documentation with dynamically editable and executable code and have become popular for sharing computational methods. We present nbdocker, an extension that integrates Docker software containers into Jupyter notebooks. nbdocker transforms notebooks into autonomous, self-contained, executable and reproducible modules that can document and disseminate complicated data science workflows containing code written in different languages and executables requiring different software environments.

Publication Title

bioRxiv

DOI

10.1101/309567

Version

open access

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