CNVrd2

Package: CNVrd2
Type: Package
Title: CNVrd2: a read depth-based method to detect and genotype complex
common copy number variants from next generation sequencing
data.
Version: 1.10.2
Date: 2014-10-04
Author: Hoang Tan Nguyen, Tony R Merriman and Mik Black
Depends: R (>= 3.0.0), methods, VariantAnnotation, parallel, rjags,
ggplot2, gridExtra
VignetteBuilder: knitr
Suggests: knitr
Maintainer: Hoang Tan Nguyen <hoangtannguyenvn@gmail.com>
Description: CNVrd2 uses next-generation sequencing data to measure human gene copy number for multiple samples,
indentify SNPs tagging copy number variants and detect copy
number polymorphic genomic regions.
License: GPL-2
Imports: DNAcopy, IRanges, Rsamtools
biocViews: CopyNumberVariation, SNP, Sequencing, Software, Coverage,
LinkageDisequilibrium, Clustering.
Collate: AllClasses.R AllGenerics.R countReadInWindow.R
segmentSamples.R segmentSamplesUsingPopInformation.R
identifyPolymorphicRegion.R plotPolymorphicRegion.R
emnormalCNV.R groupCNVs.R searchGroupCNVs.R groupBayesianCNVs.R
plotCNVrd2.R calculateLDSNPandCNV.R
URL: https://github.com/hoangtn/CNVrd2
Packaged: 2016-05-16 04:11:56 UTC; biocbuild
NeedsCompilation: no

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'CNVrd2' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'CNVrd2'
    finding HTML links ... done
    CNVrd2-class                            html  
    CNVrd2-package                          html  
    calculateLDSNPandCNV                    html  
    ccl3l1data                              html  
    clusteringCNVs-class                    html  
    countReadInWindow-methods               html  
    countReadInWindow                       html  
    emnormalCNV-methods                     html  
    emnormalCNV                             html  
    fcgr3bMXL                               html  
    groupBayesianCNVs                       html  
    groupCNVs-methods                       html  
    groupCNVs                               html  
    identifyPolymorphicRegion-methods       html  
    identifyPolymorphicRegion               html  
    numericOrNULL-class                     html  
    plotCNVrd2-methods                      html  
    plotCNVrd2                              html  
    plotPolymorphicRegion-methods           html  
    plotPolymorphicRegion                   html  
    searchGroupCNVs-methods                 html  
    searchGroupCNVs                         html  
    segmentSamples-methods                  html  
    segmentSamples                          html  
    segmentSamplesUsingPopInformation-methods
                                            html  
    segmentSamplesUsingPopInformation       html  
    vectorORfactor-class                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (CNVrd2)
Making 'packages.html' ... done