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Concept
Bioinformatics workflow management system
Résumé
A bioinformatics workflow management system is a specialized form of workflow management system designed specifically to compose and execute a series of computational or data manipulation steps, or a workflow, that relate to bioinformatics.
There are currently many different workflow systems. Some have been developed more generally as scientific workflow systems for use by scientists from many different disciplines like astronomy and earth science. All such systems are based on an abstract representation of how a computation proceeds in the form of a directed graph, where each node represents a task to be executed and edges represent either data flow or execution dependencies between different tasks. Each system typically provides a visual front-end, allowing the user to build and modify complex applications with little or no programming expertise.
In alphabetical order, some examples of bioinformatics workflow management systems include:
Anduril bioinformatics and image analysis
BioBIKE: a Web-based, programmable, integrated biological knowledge base
CLC bio, a bioinformatics analysis and workflow management platform from QIAGEN Digital Insights.
Clone Manager from Sci-Ed.
Cuneiform: A functional workflow language for large-scale data analysis
Discovery Net: one of the earliest examples of a scientific workflow system, later commercialized as InforSense which was then acquired by IDBS.
Galaxy: initially targeted at genomics
GenePattern: A powerful scientific workflow system that provides access to hundreds of genomic analysis tools.
KNIME the Konstanz Information Miner
OnlineHPC Online workflow designer based on Taverna
UGENE provides a workflow management system that is installed on a local computer
VisTrails
With a large number of bioinformatics workflow systems to choose from, it becomes difficult to understand and compare the features of the different workflow systems.
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