rnaSeqMap

Package: rnaSeqMap
Type: Package
Title: rnaSeq secondary analyses
Version: 2.30.0
Date: 2014-09-30
Author: Anna Lesniewska <alesniewska@cs.put.poznan.pl>; Michal
Okoniewski <michal@fgcz.ethz.ch>
Maintainer: Michal Okoniewski <michal@fgcz.ethz.ch>
Depends: R (>= 2.11.0), methods, Biobase, Rsamtools, GenomicAlignments
Imports: GenomicRanges , IRanges, edgeR, DESeq, DBI
Description: The rnaSeqMap library provides classes and functions to
analyze the RNA-sequencing data using the coverage profiles in
multiple samples at a time
License: GPL-2
Collate: zzz.R utils.R plots.R NucleotideDistr.R SeqReads.R NDplots.R
NDtransforms.R bam2sig.R parseGff3.R pipelines.R
normalizations.R measures.R generators.R camelWrapper.R
biocViews: Annotation, ReportWriting, Transcription, GeneExpression,
DifferentialExpression, Sequencing, RNASeq, SAGE, Visualization
NeedsCompilation: yes
Packaged: 2016-05-04 03:45:55 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'rnaSeqMap' ...
** 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 gcoverage.c -o gcoverage.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c ghistogram.c -o ghistogram.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c regionmining.c -o regionmining.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c splicingind.c -o splicingind.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o rnaSeqMap.so Rinit.o gcoverage.o ghistogram.o regionmining.o splicingind.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/rnaSeqMap/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'rnaSeqMap'
    finding HTML links ... done
    NDplots                                 html  
    NucleotideDistr-class                   html  
    RleList2matrix                          html  
    SeqReds                                 html  
    addBamData                              html  
    addDataToReadset                        html  
    addExperimentsToReadset                 html  
    averageND                               html  
    bam2sig                                 html  
    buildDESeq                              html  
    buildDGEList                            html  
    findRegionsAsIR                         html  
    findRegionsAsND                         html  
    fiveCol2GRanges                         html  
    gRanges2CamelMeasures                   html  
    geneInChromosome                        html  
    generators                              html  
    getBamData                              html  
    getCoverageFromRS                       html  
    getData                                 html  
    getExpDescription                       html  
    getFCFromND                             html  
    getSIFromND                             html  
    getSumsExp                              html  
    measures                                html  
    normalizations                          html  
    normalizeBySum                          html  
    parseGff3                               html  
    plotGeneCoverage                        html  
    readsInRange                            html  
    regionBasedCoverage                     html  
    regionCoverage                          html  
    rs.list                                 html  
    setData                                 html  
    setSAXPYData                            html  
    setSpecies                              html  
    simplePlot                              html  
    spaceInChromosome                       html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (rnaSeqMap)
Making 'packages.html' ... done