gespeR

Package: gespeR
Imports: Matrix, glmnet, cellHTS2, Biobase, biomaRt, doParallel,
parallel, foreach, reshape2, dplyr
Depends: methods, graphics, ggplot2, R (>= 2.10)
Suggests: knitr
biocViews: CellBasedAssays, Preprocessing, GeneTarget, Regression,
Visualization
VignetteBuilder: knitr
Type: Package
Lazyload: yes
Title: Gene-Specific Phenotype EstimatoR
Version: 1.4.2
Date: 2015-07-22
Author: Fabian Schmich
Maintainer: Fabian Schmich <fabian.schmich@bsse.ethz.ch>
Description: Estimates gene-specific phenotypes from off-target confounded RNAi
screens. The phenotype of each siRNA is modeled based on on-targeted and
off-targeted genes, using a regularized linear regression model.
License: GPL-3
URL: http://www.cbg.ethz.ch/software/gespeR
Collate: 'Phenotypes-class.R' 'TargetRelations-class.R'
'gespeR-class.R' 'gespeR-concordance.R' 'gespeR-functions.R'
'gespeR-generics.R' 'gespeR-methods.R' 'gespeR-package.R'
NeedsCompilation: no
Packaged: 2016-05-16 05:08:25 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'gespeR' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'as.data.frame' from package 'base' in package 'gespeR'
** help
*** installing help indices
  converting help for package 'gespeR'
    finding HTML links ... done
    Phenotypes-class                        html  
    TargetRelations-class                   html  
    annotate.gsp-methods                    html  
    as.data.frame-Phenotypes-method         html  
    as.data.frame.concordance               html  
    c-Phenotypes-method                     html  
    concordance                             html  
    dim-Phenotypes-method                   html  
    gespeR-class                            html  
    finding level-2 HTML links ... done

    gespeR-package                          html  
    gspssp-methods                          html  
    join-methods                            html  
    lasso.rand                              html  
    na.rem-methods                          html  
    path-methods                            html  
    plot.Phenotypes                         html  
    plot.concordance                        html  
    plot.gespeR                             html  
    rbo                                     html  
    scores-methods                          html  
    simData                                 html  
    stability-methods                       html  
    stability.selection                     html  
    stabilityfits                           html  
    sub-Phenotypes-ANY-ANY-ANY-method       html  
    sub-TargetRelations-ANY-ANY-ANY-method
                                            html  
    target-relations-methods                html  
    trmatrix-methods                        html  
    values-methods                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (gespeR)
Making 'packages.html' ... done