MEAL

Package: MEAL
Title: Perform methylation analysis
Version: 1.2.3
Authors@R: c(person("Carlos", "Ruiz", , "cruiz@creal.cat", role = c("aut", "cre")),
person("Carles", "Hernandez-Ferrer", , "chernandez@creal.cat", role = "aut"),
person("Juan R.", "Gonz<c3><a1>lez", ,"jrgonzalez@creal.cat", role = "aut"))
Description: Package to integrate methylation and expression data. It can
also perform methylation or expression analysis alone. Several plotting
functionalities are included as well as a new region analysis based on
redundancy analysis. Effect of SNPs on a region can also be estimated.
Depends: R (>= 3.2.0), Biobase, MultiDataSet
License: Artistic-2.0
biocViews: DNAMethylation, Microarray, Software, WholeGenome
LazyData: true
Imports: GenomicRanges, SNPassoc, limma, DMRcate, snpStats, vegan,
BiocGenerics, minfi, IRanges, S4Vectors, methods, doParallel,
parallel, ggplot2 (>= 2.0.0), sva, permute
Suggests: testthat, IlluminaHumanMethylation450kanno.ilmn12.hg19,
knitr, minfiData, MEALData, BiocStyle
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-05-31 06:18:04 UTC; biocbuild
Author: Carlos Ruiz [aut, cre],
Carles Hernandez-Ferrer [aut],
Juan R. Gonz<c3><a1>lez [aut]
Maintainer: Carlos Ruiz <cruiz@creal.cat>

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'MEAL' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'MEAL'
    finding HTML links ... done
    AnalysisRegionResults-class             html  
    AnalysisResults-class                   html  
    DAPipeline                              html  
    DAProbe                                 html  
    DARegion                                html  
    DARegionAnalysis                        html  
    MEAL                                    html  
    finding level-2 HTML links ... done

    RDAset                                  html  
Rd warning: /tmp/Rtmpp6yuII/R.INSTALL76c4744f417/MEAL/man/RDAset.Rd:31: missing file link 'rda'
    calculateRelevantSNPs                   html  
    computeRDAR2                            html  
    correlationMethExprs                    html  
    createRanges                            html  
    explainedVariance                       html  
    exportResults-methods                   html  
    filterSet-methods                       html  
    getGeneVals-methods                     html  
    multiCorrMethExprs                      html  
    normalSNP                               html  
    plotBestFeatures                        html  
    plotEWAS-methods                        html  
    plotFeature                             html  
    plotLM                                  html  
    plotQQ-methods                          html  
    plotRDA-methods                         html  
    plotRegion-methods                      html  
    plotRegionR2-methods                    html  
    plotVolcano-methods                     html  
    preparePhenotype                        html  
    topRDAhits-methods                      html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (MEAL)
Making 'packages.html' ... done