Abstract
BackgroundNode.js is an open-source and cross-platform environment that provides a JavaScript codebase for back-end server-side applications. JavaScript has been used to develop very fast and user-friendly front-end tools for bioinformatic and phylogenetic analyses. However, no such toolkits are available using Node.js to conduct comprehensive molecular phylogenetic analysis.ResultsTo address this problem, I have developed, phylo-node, which was developed using Node.js and provides a stable and scalable toolkit that allows the user to perform diverse molecular and phylogenetic tasks. phylo-node can execute the analysis and process the resulting outputs from a suite of software options that provides tools for read processing and genome alignment, sequence retrieval, multiple sequence alignment, primer design, evolutionary modeling, and phylogeny reconstruction. Furthermore, phylo-node enables the user to deploy server dependent applications, and also provides simple integration and interoperation with other Node modules and languages using Node inheritance patterns, and a customized piping module to support the production of diverse pipelines.Conclusionsphylo-node is open-source and freely available to all users without sign-up or login requirements. All source code and user guidelines are openly available at the GitHub repository: https://github.com/dohalloran/phylo-node.
Highlights
BackgroundNode.js is an open-source and cross-platform environment that provides a JavaScript codebase for back-end server-side applications
The cost of whole genome sequencing has plummeted over the last decade and as a consequence, the demand for genome sequencing technology has risen significantly [1]
April 14, 2017 phylo-node demand has meant that producing large complex datasets of DNA and RNA sequence information is common in small research labs, and in terms of human health this boom in sequence information and precipitous drop in sequencing costs has had a direct impact in the area of personalized medicine [2,3,4,5]
Summary
Node.js is an open-source and cross-platform environment that provides a JavaScript codebase for back-end server-side applications. JavaScript has been used to develop very fast and user-friendly front-end tools for bioinformatic and phylogenetic analyses. No such toolkits are available using Node.js to conduct comprehensive molecular phylogenetic analysis
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