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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Vydáno v:Cell systems Ročník 9; číslo 5; s. 508
Hlavní autoři: Hung, Ling-Hong, Hu, Jiaming, Meiss, Trevor, Ingersoll, Alyssa, Lloyd, Wes, Kristiyanto, Daniel, Xiong, Yuguang, Sobie, Eric, Yeung, Ka Yee
Médium: Journal Article
Jazyk:angličtina
Vydáno: United States 27.11.2019
Témata:
RNA sequencing
software development
Docker
bioinformatics workflows
reproducibility of research
ISSN:2405-4720, 2405-4720
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Shrnutí: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.
Bibliografie:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
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ISSN:2405-4720
2405-4720
DOI:10.1016/j.cels.2019.08.007