Rcupcake: an R package for querying and analyzing biomedical data through the BD2K PIC-SURE RESTful API

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To access the full text documents, please follow this link: http://hdl.handle.net/10230/35595

dc.contributor.author	Gutiérrez Sacristán, Alba
dc.contributor.author	Guedj, Romain
dc.contributor.author	Korodi, Gabor
dc.contributor.author	Stedman, Jason
dc.contributor.author	Furlong, Laura I., 1971-
dc.contributor.author	Patel, Chirag J.
dc.contributor.author	Kohane, Isaac S.
dc.contributor.author	Avillach, Paul
dc.date	2018
dc.identifier.citation	Gutiérrez-Sacristán A, Guedj R, Korodi G, Stedman J, Furlong LI, Patel CJ. Rcupcake: an R package for querying and analyzing biomedical data through the BD2K PIC-SURE RESTful API. Bioinformatics. 2018 Apr 15;34(8):1431-1432. DOI: 10.1093/bioinformatics/btx788
dc.identifier.citation	1367-4803
dc.identifier.citation	http://dx.doi.org/10.1093/bioinformatics/btx788
dc.identifier.uri	http://hdl.handle.net/10230/35595
dc.format	application/pdf
dc.language.iso	eng
dc.publisher	Oxford University Press
dc.rights	info:eu-repo/semantics/openAccess
dc.rights	Copyright © The Author 2017. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
dc.rights	http://creativecommons.org/licenses/by-nc/4.0/
dc.subject	Macrodades
dc.subject	Electrònica mèdica
dc.title	Rcupcake: an R package for querying and analyzing biomedical data through the BD2K PIC-SURE RESTful API
dc.type	info:eu-repo/semantics/article
dc.type	info:eu-repo/semantics/publishedVersion
dc.description.abstract	MOTIVATION: In the era of big data and precision medicine, the number of databases containing clinical, environmental, self-reported and biochemical variables is increasing exponentially. Enabling the experts to focus on their research questions rather than on computational data management, access and analysis is one of the most significant challenges nowadays. RESULTS: We present Rcupcake, an R package that contains a variety of functions for leveraging different databases through the BD2K PIC-SURE RESTful API and facilitating its query, analysis and interpretation. The package offers a variety of analysis and visualization tools, including the study of the phenotype co-occurrence and prevalence, according to multiple layers of data, such as phenome, exposome or genome.

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