geneRxCluster

Package: geneRxCluster
Date: 2013-02-13
Version: 1.8.0
License: GPL (>= 2)
Description: Detect Differential Clustering of Genomic Sites such as
gene therapy integrations. The package provides some functions
for exploring genomic insertion sites originating from two
different sources. Possibly, the two sources are two different
gene therapy vectors. Vectors are preferred that target
sensitive regions less frequently, motivating the search for
localized clusters of insertions and comparison of the clusters
formed by integration of different vectors. Scan statistics
allow the discovery of spatial differences in clustering and
calculation of False Discovery Rates (FDRs) providing
statistical methods for comparing retroviral vectors. A scan
statistic for comparing two vectors using multiple window
widths to detect clustering differentials and compute FDRs is
implemented here.
Title: gRx Differential Clustering
Author: Charles Berry
Maintainer: Charles Berry <ccberry@ucsd.edu>
Depends: GenomicRanges, IRanges
Suggests: RUnit, BiocGenerics
biocViews: Sequencing, Clustering, Genetics
NeedsCompilation: yes
Packaged: 2016-05-04 05:15:55 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'geneRxCluster' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c cluster.c -o cluster.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o geneRxCluster.so cluster.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/geneRxCluster/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'geneRxCluster'
    finding HTML links ... done
    critVal.alpha                           html  
    critVal.power                           html  
    critVal.target                          html  
    gRxCluster-object                       html  
    finding level-2 HTML links ... done

    gRxCluster                              html  
    gRxPlot                                 html  
    gRxPlotClumps                           html  
    gRxSummary                              html  
    geneRxCluster                           html  
    noprune                                 html  
    plot.cutpoints                          html  
    prune.loglik                            html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (geneRxCluster)
Making 'packages.html' ... done