PMC:5210613 / 5352-6822 JSONTXT

{"project":"2_test","denotations":[{"id":"27679478-25861210-77692425","span":{"begin":891,"end":892},"obj":"25861210"},{"id":"27679478-11301314-77692426","span":{"begin":1078,"end":1079},"obj":"11301314"}],"text":"High performance computing environment\nIncreased influenza virus surveillance and sequencing efforts worldwide resulted in an increasingly large number of influenza virus sequences and related data, calling for computational infrastructures that can support large-scale data storage and analysis. To meet the needs of computationally intensive analyses, IRD has partnered with the NSF-sponsored Cyber-Infrastructure for Phylogenetic RESearch (CIPRES) Gateway (7) and now provides users with an option to perform computationally-intensive tasks in a high performance computing environment. Specifically, when a user submits a large phylogenetic analysis job to IRD, the user is provided with the option of running the analysis in the CIPRES environment. If the user chooses this option, the sequences needed to generate a tree are sent to CIPRES through an application programming interface (8). Tree calculations are performed in the high performance computing environment, and the resulting tree file is then returned for visualization in the Archaeopteryx tree viewer in IRD (9). An important advantage of the Archaeopteryx implementation in IRD is that it supports user-driven metadata-based tree leaf coloring, which allows for visual pattern recognition in the phylogenetic data. This collaboration between scientific resources allows users to leverage both the high performance computing environment in CIPRES and the metadata-based tree decoration options in IRD."}