PGPC

Package: PGPC
Type: Package
Title: Experimental data and analysis of the chemical-genetic
interaction screen in isogenic HCT116 cell lines
Version: 1.0.2
Author: Felix Klein
Maintainer: Felix Klein <felix.klein@embl.de>
Description: This package contains the experimental data and a vignette
guiding through the analysis of a chemical-genenetic
interaction screen in isogenic HCT116 cell lines. The code can
be executed to generate all results and figures for the
manuscript "A chemical-genetic interaction map of small molecules using
high-throughput imaging in cancer cells" accepted for publicaton at
Molecular Systems Biology. Data availability: Complementary views on
this dataset are available through different repositories. The image
data files are available from the BioStudies database at the European
Bioinformatics Institute (EMBL-EBI) under the accession S-BSMS-PGPC1
(http://wwwdev.ebi.ac.uk/biostudies/studies/S-BSMS-PGPC1)
An interactive front-end for exploration of the images is provided by
the IDR database http://dx.doi.org/10.17867/10000101.
The authors are hosting an interactive webpage to browse images and
interaction profiles at http://dedomena.embl.de/PGPC.
License: Artistic-2.0
LazyLoad: true
Depends: R (>= 3.0), EBImage, imageHTS, SearchTrees, limma,
RColorBrewer, gplots, splots, ggplot2, geneplotter, ChemmineR,
reshape2, plyr
VignetteBuilder: knitr
Suggests: BiocStyle, knitr
biocViews: CancerData, ColonCancerData, ExperimentData
NeedsCompilation: no
Packaged: 2016-05-28 15:50:08 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'PGPC' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'PGPC'
    finding HTML links ... done
    datamatrixTransformed                   html  
    ftrs                                    html  
    finding level-2 HTML links ... done

    getFeaturesAllSpots                     html  
    getInteractions                         html  
    interactions                            html  
    mergeProfiles                           html  
    segmentAllSpots                         html  
    segmentXman                             html  
    selected                                html  
    summarizeWellsExtended                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (PGPC)
Making 'packages.html' ... done