Using BioDepot-workflow-builder to Access Public Databases in a Containerized Environment

Modern day analyses of biomedical data typically involves a series of computational tasks called workflows. Each of these modules could be written by different laboratories and thus, potentially requires different computing environments. Reproducible analyses of biomedical data is a growing field of...

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Bibliographic Details
Published in:	2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) p. 1243
Main Authors:	Scott, Christin, Hung, Ling-Hong, Lloyd, Wes, Yeung, Ka Yee
Format:	Conference Proceeding
Language:	English
Published:	IEEE 01.11.2019
Subjects:	Bioinformatics bioinformatics workflows Containers Docker GEO Laboratories reproducibility of research Reproducibility of results Software software development Software development management
Online Access:	Get full text
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Summary:	Modern day analyses of biomedical data typically involves a series of computational tasks called workflows. Each of these modules could be written by different laboratories and thus, potentially requires different computing environments. Reproducible analyses of biomedical data is a growing field of interest [1]. This makes it important to develop tools to facilitate analyses in a reproducible manner. Software containers have been used to increase reproducibility in bioinformatics analyses [2]. However, these software containers often use command line tools, requiring expertise that make them inaccessible to many biomedical scientists.
DOI:	10.1109/BIBM47256.2019.8983263