genMOSSplus

Package: genMOSSplus
Type: Package
Title: Application of MOSS algorithm to genome-wide association study
(GWAS)
Version: 1.0
Date: 2013-04-12
Author: Olga Vesselova, Matthew Friedlander, Laurent Briollais, Adrian Dobra, Helene Massam.
Maintainer: Laurent Briollais <laurent@lunenfeld.ca>
Description: This is a genMOSS package with additional datafile preprocessing functions. Performs genome-wide analysis of dense SNP array data using the mode oriented stochastic search (MOSS) algorithm in a case-control design. The MOSS algorithm is a Bayesian variable selection procedure that is applicable to GWAS data. It identifies combinations of the best predictive SNPs associated with the response. It also performs a hierarchical log-linear model search to identify the most relevant associations among the resulting subsets of SNPs. This package also includes preprocessing of the data from Plink format to the format required by the MOSS algorithm.
License: GPL-2
OS_type: unix
LazyLoad: yes
Packaged: 2013-08-30 17:43:50 UTC; olga
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2013-08-30 20:05:41

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'genMOSSplus' ...
** package 'genMOSSplus' successfully unpacked and MD5 sums checked
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c c_code.c -o c_code.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o genMOSSplus.so c_code.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/genMOSSplus/libs
** R
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'genMOSSplus'
    finding HTML links ... done
    MOSS.GWAS                               html  
    ex2plink                                html  
    genMOSSplus-package                     html  
    genos.clean                             html  
    genos.clean.batch                       html  
    get.data.dims                           html  
    get.file.copy                           html  
    pre0.dir.create                         html  
    pre1.plink2mach                         html  
    pre1.plink2mach.batch                   html  
    pre2.remove.genos                       html  
    pre2.remove.genos.batch                 html  
    pre3.call.mach                          html  
    pre3.call.mach.batch                    html  
    pre4.combine.case.control               html  
    pre4.combine.case.control.batch         html  
    pre5.genos2numeric                      html  
    pre5.genos2numeric.batch                html  
    pre6.merge.genos                        html  
    pre7.add.conf.var                       html  
    pre7.add.conf.var.unix                  html  
    pre8.split.train.test                   html  
    pre8.split.train.test.batch             html  
    run1.moss                               html  
    tune1.subsets                           html  
** building package indices
** testing if installed package can be loaded
* DONE (genMOSSplus)
Making 'packages.html' ... done