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|Title:||MultiDataSet: an R package for encapsulating multiple data sets with application to omic data integration|
|Author:||Hernández Ferrer, Carles|
Ruiz Arenas, Carlos
Beltran Gomila, Alba
González, Juan R.
|Keywords:||Processament de dades|
|Abstract:||BACKGROUND: Reduction in the cost of genomic assays has generated large amounts of biomedical-related data. As a result, current studies perform multiple experiments in the same subjects. While Bioconductor's methods and classes implemented in different packages manage individual experiments, there is not a standard class to properly manage different omic datasets from the same subjects. In addition, most R/Bioconductor packages that have been designed to integrate and visualize biological data often use basic data structures with no clear general methods, such as subsetting or selecting samples. RESULTS: To cover this need, we have developed MultiDataSet, a new R class based on Bioconductor standards, designed to encapsulate multiple data sets. MultiDataSet deals with the usual difficulties of managing multiple and non-complete data sets while offering a simple and general way of subsetting features and selecting samples. We illustrate the use of MultiDataSet in three common situations: 1) performing integration analysis with third party packages; 2) creating new methods and functions for omic data integration; 3) encapsulating new unimplemented data from any biological experiment. CONCLUSIONS: MultiDataSet is a suitable class for data integration under R and Bioconductor framework.|
|Note:||Reproducció del document publicat a: http://dx.doi.org/10.1186/s12859-016-1455-1|
|It is part of:||BMC Bioinformatics, 2017, vol. 18, num. 36|
|Appears in Collections:||Articles publicats en revistes (ISGlobal)|
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