engleski

Zero to a Bioinformatics Analysis Platform in 4 Minutes

Many algorithms, toolkits and pipelines provide powerful approaches for manipulating biological data into meaningful information. However, it is still difficult to gain access to an up-to-date set of tools, data, and resources required to, for example, run a complete variant detection analysis pipeline. To do so, a researcher is required to have compute resources ; configure those ; find, install, and configure the currently recommended set of tools ; upload reference data ; upload research data and only then focus on using the analysis pipeline to answer biological questions. To ease this process and greatly improve accessibility of biological tools, we have developed a set of services that automate many of the underlying steps and deliver complete analysis environments to the researcher. This talk will highlight the symbiosis between four coordinated projects that together provide accessibility to a variety of tools, improve ease of use, provide an opportunity for platform customization, and focus on building a sustainable community of users and developers: 1. CloudBioLinux, as a method for configuring bioinformatics analysis environments making it possible to prepare a machine image (in the cloud or otherwise) with over 100 bioinformatics tools and a large set of reference genome data. 2. CloudMan, as a platform for scalable tool execution, data integration, and sharing that works with multiple clouds, making it possible to scale the execution of jobs, customize individual environments, share those, and utilize commercial or research clouds (AWS, OpenNebula, OpenStack are operational while Eucalyptus support is forthcoming from JCVI). 3. BioCloudCentral.org, as a hub for easy access to the available cloud environments. It is a portal that allows a user to gain access to CloudBioLinux and CloudMan platform on any (compatible) cloud with a single mouse click. 4. Galaxy, as a graphical web-based tool execution framework capable of exploiting the software and infrastructure provided by CloudBioLinux and CloudMan. The available Galaxy is completely configured with all the underlying tools, reference data and infrastructure scalability needed for biologists to run computational pipelines.

Cloud computing; Automation

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