consensusSeekeR

Package: consensusSeekeR
Version: 1.0.2
Date: 2015-05-01
Title: Detection of consensus regions inside a group of experiences
using genomic positions and genomic ranges
Description: This package compares genomic positions and genomic ranges from
multiple experiments to extract common regions. The size of the analyzed region
is adjustable as well as the number of experiences in which a feature must be
present in a potential region to tag this region as a consensus region.
Author: Astrid Deschenes [cre, aut], Fabien Claude Lamaze [ctb], Pascal Belleau
[aut], Arnaud Droit [aut]
Author@R: c(person("Astrid", "Deschenes", email="Astrid-
Louise.Deschenes@crchudequebec.ulaval.ca",
role=c("cre","aut")), person("Fabien Claude", "Lamaze",
email="fabien.lamaze.1@ulaval.ca", role=c("ctb")),
person("Pascal", "Belleau",
email="pascal.belleau@crchuq.ulaval.ca", role=c("aut")),
person("Arnaud", "Droit",
email="arnaud.droit@crchuq.ulaval.ca", role=c("aut")))
Depends: R (>= 2.10), BiocGenerics, IRanges, GenomicRanges,
BiocParallel
Imports: GenomeInfoDb, rtracklayer, stringr, S4Vectors
Suggests: BiocStyle, ggplot2, knitr, RUnit
License: Artistic-2.0
URL: https://github.com/ArnaudDroitLab/consensusSeekeR
BugReports: https://github.com/ArnaudDroitLab/consensusSeekeR/issues
VignetteBuilder: knitr
NeedsCompilation: no
biocViews: BiologicalQuestion, ChIPSeq, Genetics, MultipleComparison,
Transcription, PeakDetection, Sequencing, Coverage
Maintainer: Astrid Louise Deschenes <Astrid-Louise.Deschenes@crchudequebec.ulaval.ca>
RoxygenNote: 5.0.1
Packaged: 2016-05-16 05:51:37 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'consensusSeekeR' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'consensusSeekeR'
    finding HTML links ... done
    A549_CTCF_MYJ_NarrowPeaks_partial       html  
    A549_CTCF_MYJ_Peaks_partial             html  
    A549_CTCF_MYN_NarrowPeaks_partial       html  
    A549_CTCF_MYN_Peaks_partial             html  
    A549_FOSL2_01_NarrowPeaks_partial       html  
    A549_FOSL2_01_Peaks_partial             html  
    A549_FOXA1_01_NarrowPeaks_partial       html  
    A549_FOXA1_01_Peaks_partial             html  
    A549_NR3C1_CFQ_NarrowPeaks_partial      html  
    A549_NR3C1_CFQ_Peaks_partial            html  
    A549_NR3C1_CFR_NarrowPeaks_partial      html  
    A549_NR3C1_CFR_Peaks_partial            html  
    A549_NR3C1_CFS_NarrowPeaks_partial      html  
    A549_NR3C1_CFS_Peaks_partial            html  
    NOrMAL_nucleosome_positions             html  
    NOrMAL_nucleosome_ranges                html  
    NucPosSimulator_nucleosome_positions    html  
    NucPosSimulator_nucleosome_ranges       html  
    PING_nucleosome_positions               html  
    PING_nucleosome_ranges                  html  
    consensusSeekeR-package                 html  
    findConsensusPeakRegions                html  
    findConsensusPeakRegionsForOneChrom     html  
    findConsensusPeakRegionsValidation      html  
    isInteger                               html  
    readNarrowPeakFile                      html  
    refineRegion                            html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (consensusSeekeR)
Making 'packages.html' ... done