Building Containerized Workflows Using the BioDepot-Workflow-Builder

We present the BioDepot-workflow-builder (Bwb), a software tool that allows users to create and execute reproducible bioinformatics workflows using a drag-and-drop interface. Graphical widgets represent Docker containers executing a modular task. Widgets are linked graphically to build bioinformatic...

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Bibliographic Details
Published in:Cell systems Vol. 9; no. 5; p. 508
Main Authors: Hung, Ling-Hong, Hu, Jiaming, Meiss, Trevor, Ingersoll, Alyssa, Lloyd, Wes, Kristiyanto, Daniel, Xiong, Yuguang, Sobie, Eric, Yeung, Ka Yee
Format: Journal Article
Language:English
Published: United States 27.11.2019
Subjects:
RNA sequencing
software development
Docker
bioinformatics workflows
reproducibility of research
ISSN:2405-4720, 2405-4720
Online Access:Get more information
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Summary:We present the BioDepot-workflow-builder (Bwb), a software tool that allows users to create and execute reproducible bioinformatics workflows using a drag-and-drop interface. Graphical widgets represent Docker containers executing a modular task. Widgets are linked graphically to build bioinformatics workflows that can be reproducibly deployed across different local and cloud platforms. Each widget contains a form-based user interface to facilitate parameter entry and a console to display intermediate results. Bwb provides tools for rapid customization of widgets, containers, and workflows. Saved workflows can be shared using Bwb's native format or exported as shell scripts.
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ISSN:2405-4720
2405-4720
DOI:10.1016/j.cels.2019.08.007