R Graphical Manual

Browse All

Last data update: 2014.03.03

GeneBreak

Package: GeneBreak
Type: Package
Version: 1.2.0
Title: Gene Break Detection
Author: Evert van den Broek, Stef van Lieshout
Maintainer: Evert van den Broek <vandenbroek.evert@gmail.com>
Imports: graphics, methods
Depends: R (>= 3.2), QDNAseq, CGHcall, CGHbase, GenomicRanges
URL: https://github.com/stefvanlieshout/GeneBreak
Description: Recurrent breakpoint gene detection on copy number
aberration profiles.
License: GPL-2
biocViews: aCGH, CopyNumberVariation, DNASeq, Genetics, Sequencing,
WholeGenome, Visualization
LazyData: FALSE
NeedsCompilation: no
Packaged: 2016-05-04 06:37:34 UTC; biocbuild

● BiocViews: CopyNumberVariation, DNASeq, Genetics, Sequencing, Visualization, WholeGenome, aCGH
● 3 images, 22 functions, 6 datasets
● Reverse Depends: 0

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'GeneBreak' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for 'segmentData' in package 'GeneBreak'
** help
*** installing help indices
  converting help for package 'GeneBreak'
    finding HTML links ... done
    CopyNumberBreakPointGenes-class         html  
    CopyNumberBreakPoints-class             html  
    GeneBreak                               html  
    accessOptions-CopyNumberBreakPoints-method
                                            html  
    addGeneAnnotation-CopyNumberBreakPoints-method
                                            html  
    bpFilter-CopyNumberBreakPoints-method   html  
    bpGenes-CopyNumberBreakPointGenes-method
                                            html  
    bpPlot-CopyNumberBreakPoints-method     html  
    bpStats-CopyNumberBreakPoints-method    html  
    breakpointData-CopyNumberBreakPoints-method
                                            html  
    breakpointsPerGene-CopyNumberBreakPointGenes-method
                                            html  
    callData-CopyNumberBreakPoints-method   html  
    copynumber.data.chr18                   html  
    copynumber.data.chr20                   html  
    copynumber.data.chr21                   html  
    ens.gene.ann.hg18                       html  
    ens.gene.ann.hg19                       html  
    ens.gene.ann.hg38                       html  
    featureChromosomes-CopyNumberBreakPoints-method
                                            html  
    featureInfo-CopyNumberBreakPoints-method
                                            html  
    featuresPerGene-CopyNumberBreakPointGenes-method
                                            html  
    geneChromosomes-CopyNumberBreakPointGenes-method
                                            html  
    geneInfo-CopyNumberBreakPointGenes-method
                                            html  
    getBreakpoints                          html  
    namesFeatures-CopyNumberBreakPoints-method
                                            html  
    recurrentGenes-CopyNumberBreakPointGenes-method
                                            html  
    sampleNames-CopyNumberBreakPoints-method
                                            html  
    segmentData-CopyNumberBreakPoints-method
                                            html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (GeneBreak)
Making 'packages.html' ... done