omicRexposome

DOI: 10.18129/B9.bioc.omicRexposome    

This is the development version of omicRexposome; for the stable release version, see omicRexposome.

Exposome and omic data associatin and integration analysis

Bioconductor version: Development (3.8)

omicRexposome systematizes the association evaluation between exposures and omic data, taking advantage of MultiDataSet for coordinated data management, rexposome for exposome data definition and limma for association testing. Also to perform data integration mixing exposome and omic data using multi co-inherent analysis (omicade4) and multi-canonical correlation analysis (PMA).

Author: Carles Hernandez-Ferrer [aut, cre], Juan R. González [aut]

Maintainer: Carles Hernandez-Ferrer <carles.hernandez at isglobal.org>

Citation (from within R, enter citation("omicRexposome")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("omicRexposome")

Documentation

HTML R Script Exposome Data Integration with Omic Data
PDF   Reference Manual
Text   LICENSE

Details

biocViews DifferentialExpression, DifferentialMethylation, Epigenetics, GeneExpression, GeneRegulation, MultipleComparison, Proteomics, Regression, Software, StatisticalMethod, Transcriptomics, Visualization, WorkflowStep
Version 1.3.0
License MIT + file LICENSE
Depends R (>= 3.4), Biobase
Imports stats, utils, grDevices, graphics, methods, rexposome, limma, sva, ggplot2, ggrepel, PMA, omicade4, gridExtra, MultiDataSet, SmartSVA, isva, parallel, SummarizedExperiment, stringr
LinkingTo
Suggests BiocStyle, knitr, rmarkdown, snpStats, brgedata
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package omicRexposome_1.3.0.tar.gz
Windows Binary omicRexposome_1.3.0.zip
Mac OS X 10.11 (El Capitan) omicRexposome_1.3.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/omicRexposome
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/omicRexposome
Package Short Url http://bioconductor.org/packages/omicRexposome/
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