Mulder2012

Package: Mulder2012
Type: Package
Title: Predicting functional networks and modules of chromatin factors
controlling adult stem cell fate from RNA interference screens
Version: 0.12.0
Date: 2012-05-30
Author: Xin Wang <Xin.Wang@cancer.org.uk>, Florian Markowetz <Florian.Markowetz@cancer.org.uk>
Maintainer: Xin Wang <Xin.Wang@cancer.org.uk>
Depends: R (>= 2.14), org.Hs.eg.db, KEGG.db
Imports: igraph, HTSanalyzeR, PANR, RedeR, pvclust, MASS
Suggests: snow
Description: This package provides functions to reproduce results and figures in Mulder K. et. al. published in Nature Cell Biology 2012 and Wang X. et. al. published in PLoS Computational Biology 2012.
License: Artistic-2.0
biocViews: StemCell, CancerData
Collate: Mulder2012_fun.R Mulder2012.R Arora2010_fun.R Arora2010.R
LazyLoad: yes
Packaged: 2016-05-07 20:25:23 UTC; biocbuild
NeedsCompilation: no

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'Mulder2012' ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import 'igraph::union' by 'GSEABase::union' when loading 'HTSanalyzeR'
** help
*** installing help indices
  converting help for package 'Mulder2012'
    finding HTML links ... done
    Arora2010.BMfitting                     html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.BMfitting.Rd:34: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.BMfitting.Rd:43: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.BMfitting.Rd:59: missing file link 'BetaMixture'
    Arora2010.InferPAN                      html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.InferPAN.Rd:17: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.InferPAN.Rd:39: missing file link 'PAN'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.InferPAN.Rd:40: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.InferPAN.Rd:47: missing file link 'PAN'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.InferPAN.Rd:63: missing file link 'PAN'
    Arora2010.ModuleSearchByPvclust         html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.ModuleSearchByPvclust.Rd:17: missing file link 'PAN'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.ModuleSearchByPvclust.Rd:56: missing file link 'PAN'
    Arora2010.fig                           html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.fig.Rd:52: missing file link 'RedeR'
    Arora2010.hypergeo                      html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.hypergeo.Rd:61: missing file link 'PAN'
    Arora2010.module.visualize              html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Arora2010.module.visualize.Rd:61: missing file link 'RedeR'
    Arora2010.pipeline                      html  
    GSEARandomWalkFig                       html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/GSEARandomWalkFig.Rd:24: missing file link 'BetaMixture'
    Mulder2012.BMfitting                    html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.BMfitting.Rd:42: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.BMfitting.Rd:52: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.BMfitting.Rd:68: missing file link 'BetaMixture'
    Mulder2012.InferPAN                     html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.InferPAN.Rd:17: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.InferPAN.Rd:39: missing file link 'PAN'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.InferPAN.Rd:40: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.InferPAN.Rd:47: missing file link 'PAN'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.InferPAN.Rd:63: missing file link 'PAN'
    Mulder2012.ModuleSearchByPvclust        html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.ModuleSearchByPvclust.Rd:17: missing file link 'PAN'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.ModuleSearchByPvclust.Rd:56: missing file link 'PAN'
    Mulder2012.PPIPre                       html  
    Mulder2012.PPIenrich                    html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.PPIenrich.Rd:23: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.PPIenrich.Rd:37: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.PPIenrich.Rd:56: missing file link 'BetaMixture'
    Mulder2012.RNAiPre                      html  
    Mulder2012.fig                          html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.fig.Rd:55: missing file link 'RedeR'
    Mulder2012.module.visualize             html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/Mulder2012.module.visualize.Rd:65: missing file link 'RedeR'
    Mulder2012.pipeline                     html  
    data-Arora2010                          html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/data-Arora2010.Rd:22: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/data-Arora2010.Rd:25: missing file link 'PAN'
    data-Mulder2012                         html  
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/data-Mulder2012.Rd:41: missing file link 'BetaMixture'
Rd warning: /tmp/RtmpfAFNO3/R.INSTALL7706082169e/Mulder2012/man/data-Mulder2012.Rd:44: missing file link 'PAN'
    dist.pvclust4PAN                        html  
    parPvclust4PAN                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'igraph::union' by 'GSEABase::union' when loading 'HTSanalyzeR'
* DONE (Mulder2012)
Making 'packages.html' ... done