myExperiment: a repository and social network for the sharing of bioinformatics workflows

By Carole A. Goble, Jiten Bhagat, Sergejs Aleksejevs, Don Cruickshank, D. Michaelides, David R. Newman, Mark Borkum, Sean Bechhofer, M. Roos, Peter Li and 1 more. Nucleic Acids Res., 2010

336 citations recorded by the source corpus.

myExperiment (http://www.myexperiment.org) is an online research environment that supports the social sharing of bioinformatics workflows. These workflows are procedures consisting of a series of computational tasks using web services, which may be performed on data from its retrieval, integration and analysis, to the visualization of the results. As a public repository of workflows, myExperiment allows anybody to discover those that are relevant to their research, which can then be reused and repurposed to their specific requirements. Conversely, developers can submit their workflows to myExperiment and enable them to be shared in a secure manner. Since its release in 2007, myExperiment currently has over 3500 registered users and contains more than 1000 workflows. The social aspect to the sharing of these workflows is facilitated by registered users forming virtual communities bound together by a common interest or research project. Contributors of workflows can build their reputation within these communities by receiving feedback and credit from individuals who reuse their work. Further documentation about myExperiment including its REST web service is available from http://wiki.myexperiment.org. Feedback and requests for support can be sent to bugs@myexperiment.org.

Subfields: Computer Networks and Communications, Information Systems, Information Systems and Management

View Paper: https://www.semanticscholar.org/paper/5b4c23484dea349a9f0f354e26a3f26c0ca6cc40

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Citations in the corpus

Ten Simple Rules for Reproducible Computational Research (2013, background): “Such executable descriptions [10] might come in the form of simple shell scripts or makefiles [15,16] at the command line, or in the form of stored workflows in a workflow management system [10,11,13,17,18].”
Analysis Tool Web Services from the EMBL-EBI (2013, methodology): “Additionally published workflow definitions, which consume these services, created using Taverna (24) and other workflow design tools can be found in repositories such as myExperiment (25).”
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010, background): “One of Tavern’s most interesting features is its use of the myExperiment platform for sharing workflows; myExperiment is a website that enables users to upload and share their workflows with others as well as download and use others’ workflows [34].”
Ecoinformatics: supporting ecology as a data-intensive science. (2012, background): “Third, little attention has been paid to preserving the algorithms and workﬂows that scientists use in assuring, analyzing and visualizing data (i.e. activities that support reproducible research) [69 – 71]. myExperiment was developed as a site where scientiﬁc workﬂows may be stored and shared [72].”