CSAR

Package: CSAR
Type: Package
Title: Statistical tools for the analysis of ChIP-seq data
Version: 1.24.0
Date: 2009-11-09
Author: Jose M Muino
Description: Statistical tools for ChIP-seq data analysis. The package
includes the statistical method described in Kaufmann et al.
(2009) PLoS Biology: 7(4):e1000090. Briefly, Taking the average
DNA fragment size subjected to sequencing into account, the
software calculates genomic single-nucleotide read-enrichment
values. After normalization, sample and control are compared
using a test based on the Poisson distribution. Test statistic
thresholds to control the false discovery rate are obtained
through random permutation.
Depends: R (>= 2.15.0), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges
Maintainer: Jose M Muino <jose.muino@wur.nl>
Suggests: ShortRead, Biostrings
Imports: stats, utils
License: Artistic-2.0
LazyLoad: yes
LazyData: yes
biocViews: ChIPSeq, Transcription, Genetics
NeedsCompilation: yes
Packaged: 2016-05-04 03:23:30 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'CSAR' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c CSAR.c -o CSAR.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o CSAR.so CSAR.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/CSAR/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'CSAR'
    finding HTML links ... done
    CSAR-package                            html  
    ChIPseqScore                            html  
    distance2Genes                          html  
    genesWithPeaks                          html  
    getPermutatedWinScores                  html  
    getThreshold                            html  
    loadMappedReads                         html  
    mappedReads2Nhits                       html  
    permutatedWinScores                     html  
    sampleSEP3_test                         html  
    score2wig                               html  
    sigWin                                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (CSAR)
Making 'packages.html' ... done