GeneSelector

Package: GeneSelector
Version: 2.22.0
Date: 2009-16-10
Title: Stability and Aggregation of ranked gene lists
Author: Martin Slawski <ms@cs.uni-sb.de>, Anne-Laure Boulesteix
<boulesteix@ibe.med.uni-muenchen.de>.
Maintainer: Martin Slawski <ms@cs.uni-sb.de>
Depends: R (>= 2.5.1), methods, stats, Biobase
Suggests: multtest, siggenes, samr, limma
Imports: multtest, siggenes, samr, limma
Description: The term 'GeneSelector' refers to a filter selecting those
genes which are consistently identified as differentially
expressed using various statistical procedures. 'Selected'
genes are those present at the top of the list in various
ranking methods (currently 14). In addition, the stability of
the findings can be taken into account in the final ranking by
examining perturbed versions of the original data set, e.g. by
leaving samples, swapping class labels, generating bootstrap
replicates or adding noise. Given multiple ranked lists, one
can use aggregation methods in order to find a synthesis.
Collate: classes.r GenerateFoldMatrix.r GenerateBootMatrix.r
RepeatRanking.r GetStabilityOverlap.r GetStabilityDistance.r
GetStabilityUnion.r AggregateSimple.r AggregatePenalty.r
AggregateMC.r AggregateSVD.r GeneSelector.r HeatmapRankings.r
RankingBaldiLong.r RankingEbam.r RankingFC.r RankingFoxDimmic.r
RankingLimma.r RankingPermutation.r RankingSam.r
RankingShrinkageT.r RankingSoftthresholdT.r RankingTstat.r
RankingWelchT.r RankingWilcEbam.r RankingWilcoxon.r internals.r
License: GPL (>= 2)
biocViews: StatisticalMethod, DifferentialExpression
NeedsCompilation: yes
Packaged: 2016-05-04 03:06:57 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'GeneSelector' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c kendall.c -o kendall.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c mcfour.c -o mcfour.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c mct.c -o mct.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o GeneSelector.so kendall.o mcfour.o mct.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/GeneSelector/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'GeneSelector'
    finding HTML links ... done
    AggregateMC                             html  
    AggregatePenalty                        html  
    AggregateSVD                            html  
    AggregateSimple                         html  
    AggregatedRanking-class                 html  
    BootMatrix-class                        html  
    FoldMatrix-class                        html  
    GeneRanking-class                       html  
    GeneSelector-package                    html  
    GeneSelector                            html  
    GeneSelectorOutput-class                html  
    GenerateBootMatrix                      html  
    GenerateFoldMatrix                      html  
    GetStabilityDistance                    html  
    GetStabilityOverlap                     html  
    GetStabilityUnion                       html  
    HeatmapRankings                         html  
    MergeMethods                            html  
    RankingBaldiLong                        html  
    RankingEbam                             html  
    RankingFC                               html  
    RankingFoxDimmic                        html  
    RankingLimma                            html  
    RankingPermutation                      html  
    RankingSam                              html  
    RankingShrinkageT                       html  
    RankingSoftthresholdT                   html  
    RankingTstat                            html  
    RankingWelchT                           html  
    RankingWilcEbam                         html  
    RankingWilcoxon                         html  
    RepeatRanking                           html  
    RepeatedRanking-class                   html  
    StabilityDistance-class                 html  
    StabilityOverlap-class                  html  
    StabilityUnion-class                    html  
    dispersion,RepeatedRanking              html  
    internals                               html  
    samplingcontrol                         html  
    toplist-methods                         html  
    toydata                                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (GeneSelector)
Making 'packages.html' ... done