conumee

Package: conumee
Title: Enhanced copy-number variation analysis using Illumina 450k
methylation arrays
Version: 1.4.2
Author: Volker Hovestadt, Marc Zapatka
Maintainer: Volker Hovestadt <conumee@hovestadt.bio>
Address: Division of Molecular Genetics, German Cancer Research Center
(DKFZ), Heidelberg, Germany
Description: This package contains a set of processing and plotting
methods for performing copy-number variation (CNV) analysis
using Illumina 450k methylation arrays.
Imports: methods, stats, DNAcopy, rtracklayer, GenomicRanges, IRanges,
GenomeInfoDb
Depends: R (>= 3.0), minfi, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19
Suggests: BiocStyle, knitr, rmarkdown, minfiData, CopyNumber450kData,
RCurl
License: GPL (>= 2)
LazyData: false
Collate: classes.R annotation.R load.R process.R output.R data.R
biocViews: CopyNumberVariation, DNAMethylation, MethylationArray,
Microarray, Normalization, Preprocessing, QualityControl,
Software
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-05-16 05:29:05 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'conumee' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'conumee'
    finding HTML links ... done
    CNV.analysis-class                      html  
    CNV.anno-class                          html  
    CNV.bin                                 html  
    CNV.check                               html  
    CNV.create_anno                         html  
    CNV.create_bins                         html  
    CNV.data-class                          html  
    CNV.detail                              html  
    CNV.detailplot                          html  
    CNV.detailplot_wrap                     html  
    CNV.fit                                 html  
    CNV.genomeplot                          html  
    CNV.load                                html  
    CNV.merge_bins                          html  
    CNV.segment                             html  
    CNV.write                               html  
    detail_regions                          html  
    exclude_regions                         html  
    read.450k.url                           html  
    tbl_ucsc                                html  
    tcgaBRCA.sentrix2name                   html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (conumee)
Making 'packages.html' ... done