bacon

Package: bacon
Type: Package
Title: Controlling bias and inflation in association studies using the
empirical null distribution
Version: 1.0.4
Authors@R: c(person("Maarten", "van Iterson",
email="mviterson@gmail.com", role="cre"), person("Erik", "van
Zwet", role="ctb"))
Author: Maarten van Iterson [aut, cre], Erik van Zwet [ctb]
Maintainer: Maarten van Iterson <mviterson@gmail.com>
Description: Bacon can be used to remove inflation and bias often
observed in epigenome- and transcriptome-wide association
studies. To this end bacon constructs an empirical null
distribution using a Gibbs Sampling algorithm by fitting a
three-component normal mixture on z-scores.
License: GPL (>= 2)
Depends: R (>= 3.3), methods, stats, ggplot2, graphics, BiocParallel,
ellipse
Suggests: BiocStyle, knitr, rmarkdown, testthat, roxygen2
biocViews: StatisticalMethod, Bayesian, Regression,
GenomeWideAssociation, Transcriptomics, RNASeq,
MethylationArray, BatchEffect, MultipleComparison
RoxygenNote: 5.0.1
Collate: 'BaconClass.R' 'BaconMethods.R' 'bacon.R' 'normmixture.R'
VignetteBuilder: knitr
NeedsCompilation: yes
URL: https://github.com/mvaniterson/bacon
BugReports: https://github.com/mvaniterson/bacon/issues
Packaged: 2016-06-15 05:53:19 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'bacon' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Rinit.c -o Rinit.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c bacon.c -o bacon.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o bacon.so Rinit.o bacon.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/bacon/libs
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'plot' from package 'graphics' in package 'bacon'
** help
*** installing help indices
  converting help for package 'bacon'
    finding HTML links ... done
    Bacon-class                             html  
    bacon                                   html  
    bias-methods                            html  
    dnormmix                                html  
    es-methods                              html  
    estimates-methods                       html  
    fit-methods                             html  
    inflation-methods                       html  
    meta-methods                            html  
    plot-Bacon-method                       html  
    plotnormmix                             html  
    posteriors-methods                      html  
    pval-methods                            html  
    rnormmix                                html  
    se-methods                              html  
    topTable-methods                        html  
    traces-methods                          html  
    tstat-methods                           html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (bacon)
Making 'packages.html' ... done