RNAinteract

Package: RNAinteract
Type: Package
Title: Estimate Pairwise Interactions from multidimensional features
Version: 1.20.0
Author: Bernd Fischer <b.fischer@dkfz.de>
Maintainer: Bernd Fischer <b.fischer@dkfz.de>
Description: RNAinteract estimates genetic interactions from
multi-dimensional read-outs like features extracted from
images. The screen is assumed to be performed in multi-well
plates or similar designs. Starting from a list of features
(e.g. cell number, area, fluorescence intensity) per well,
genetic interactions are estimated. The packages provides
functions for reporting interacting gene pairs, plotting
heatmaps and double RNAi plots. An HTML report can be written
for quality control and analysis.
License: Artistic-2.0
LazyLoad: yes
Imports: RColorBrewer, ICS, ICSNP, cellHTS2, geneplotter, gplots, grid,
hwriter, lattice, latticeExtra, limma, methods, splots (>=
1.13.12)
Depends: R (>= 2.12.0), abind, locfit, Biobase
biocViews: CellBasedAssays, QualityControl, Preprocessing,
Visualization
NeedsCompilation: no
Packaged: 2016-05-04 03:58:42 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'RNAinteract' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'RNAinteract'
    finding HTML links ... done
    RNAinteract-class                       html  
    RNAinteract-package                     html  
    bindsamples                             html  
    computePI                               html  
    computePValues                          html  
    finding level-2 HTML links ... done

    createCellHTSFromFiles                  html  
    createRNAinteract                       html  
    createRNAinteractFromFiles              html  
    embedPCA                                html  
    estimateMainEffect                      html  
    getData                                 html  
    getMain                                 html  
    getReplicateData                        html  
    getSampleNames                          html  
    getScale                                html  
    grid.doublePerturbation                 html  
    grid.sgiHeatmap                         html  
    normalizeMainEffectQuery                html  
    normalizeMainEffectTemplate             html  
    normalizePlateEffect                    html  
    plotDoublePerturbation                  html  
    plotHeatmap                             html  
    reportAnnotation                        html  
    sgi                                     html  
    sgisubset                               html  
    sgisubsetQueryDesign                    html  
    startReport                             html  
    summarizeSamples                        html  
    swaptree                                html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RNAinteract)
Making 'packages.html' ... done