GenomeGraphs

Package: GenomeGraphs
Version: 1.32.0
Title: Plotting genomic information from Ensembl
Author: Steffen Durinck <sdurinck@gmail.com>, James Bullard <bullard@berkeley.edu>
Maintainer: Steffen Durinck <sdurinck@gmail.com>
Depends: R (>= 2.10), methods, biomaRt, grid
biocViews: Visualization, Microarray
Description: Genomic data analyses requires integrated visualization of known genomic information and new experimental data. GenomeGraphs uses the biomaRt package to perform live annotation queries to Ensembl and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data. Another strength of GenomeGraphs is to plot different data types such as array CGH, gene expression, sequencing and other data, together in one plot using the same genome coordinate system.
Collate: GenomeGraphs-classes.R GenomeGraphs-methods.R GenomeGraphs.R
Overlay.R
License: Artistic-2.0
LazyLoad: yes
NeedsCompilation: no
Packaged: 2016-05-05 01:57:20 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'GenomeGraphs' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'GenomeGraphs'
    finding HTML links ... done
    AnnotationTrack-class                   html  
    BaseTrack-class                         html  
    DisplayPars-class                       html  
    DisplayPars                             html  
    ExonArray-class                         html  
    Gene-class                              html  
    GeneModel-class                         html  
    GeneRegion-class                        html  
    GenericArray-class                      html  
    GenomeAxis-class                        html  
    HighlightRegion-class                   html  
    Ideogram-class                          html  
    ImplementsTrackOverlay-class            html  
    Legend-class                            html  
    MappedRead-class                        html  
    Overlay-class                           html  
    RectangleOverlay-class                  html  
    Segmentation-class                      html  
    Smoothing-class                         html  
    TextOverlay-class                       html  
    Title-class                             html  
    TrackOverlay-class                      html  
    Transcript-class                        html  
    TranscriptRegion-class                  html  
    cn                                      html  
    drawGD                                  html  
    drawTrackOverlay-methods                html  
    exonProbePos                            html  
    gdObject-class                          html  
    gdPlot                                  html  
    geneBiomart                             html  
    geneRegionBiomart                       html  
    getGenomicRange                         html  
    getPar                                  html  
    getSize                                 html  
    ideogramTab                             html  
    intensity                               html  
    makeAnnotationTrack                     html  
    makeBaseTrack                           html  
    makeExonArray                           html  
    makeGene                                html  
    makeGeneModel                           html  
    makeGeneRegion                          html  
    makeGenericArray                        html  
    makeGenomeAxis                          html  
    makeIdeogram                            html  
    makeLegend                              html  
    makeRectangleOverlay                    html  
    makeSegmentation                        html  
    makeSmoothing                           html  
    makeTextOverlay                         html  
    makeTitle                               html  
    makeTranscript                          html  
    probestart                              html  
    segEnd                                  html  
    segStart                                html  
    segments                                html  
    seqDataEx                               html  
    setPar                                  html  
    showDisplayOptions                      html  
    unrData                                 html  
    unrNProbes                              html  
    unrPositions                            html  
    yeastCons1                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (GenomeGraphs)
Making 'packages.html' ... done