TarSeqQC

Package: TarSeqQC
Type: Package
Version: 1.2.0
Date: 2016-03-29
Title: TARgeted SEQuencing Experiment Quality Control
Author: Gabriela A. Merino, Cristobal Fresno and Elmer A. Fernandez
Maintainer: Gabriela Merino <gmerino@bdmg.com.ar>
Description: The package allows the representation of targeted
experiment in R. This is based on current packages and
incorporates functions to do a quality control over this kind
of experiments and a fast exploration of the sequenced regions.
An xlsx file is generated as output.
URL: http://www.bdmg.com.ar
License: GPL (>=2)
Depends: R (>= 3.2.1), methods, GenomicRanges, Rsamtools (>= 1.20.4),
ggplot2, plyr, openxlsx
Imports: S4Vectors, IRanges, BiocGenerics, reshape2, GenomeInfoDb,
BiocParallel, cowplot, Biostrings
Suggests: RUnit
Collate: 'TarSeqQC-package.R' 'TargetExperiment.R'
'TargetExperiment-ampliPanel.R' 'TargetExperiment-getters.R'
'TargetExperiment-setters.R' 'TargetExperiment-show.R'
'TargetExperiment-print.R' 'TargetExperiment-pileupCounts.R'
'TargetExperiment-buildFeaturePanel.R'
'TargetExperiment-summarizePanel.R'
'TargetExperiment-initialize.R'
'TargetExperiment-constructor.R'
'TargetExperiment-statistics.R' 'TargetExperiment-plot.R'
'TargetExperiment-ggplotColours.R'
'TargetExperiment-addStatSummSheet.R'
'TargetExperiment-plotRegion.R'
'TargetExperiment-plotFeature.R'
'TargetExperiment-plotGeneAttrPerFeat.R'
'TargetExperiment-plotNtdPercentage.R'
'TargetExperiment-readFrequencies.R'
'TargetExperiment-myCounts.R'
'TargetExperiment-plotInOutFeatures.R'
'TargetExperiment-biasExploration.R'
'TargetExperiment-buildReport.R'
'TargetExperiment-plotAttrPerform.R'
'TargetExperiment-plotAttrExpl.R'
'TargetExperiment-plotFeatPerform.R'
'TargetExperiment-plotMetaDataExpl.R'
biocViews: Software, Sequencing, TargetedResequencing, QualityControl,
Visualization, Coverage, Alignment, DataImport
NeedsCompilation: no
Packaged: 2016-05-04 06:32:46 UTC; biocbuild
RoxygenNote: 5.0.1

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'TarSeqQC' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'print' from package 'base' in package 'TarSeqQC'
** help
*** installing help indices
  converting help for package 'TarSeqQC'
    finding HTML links ... done
    TarSeqQC-package                        html  
    TargetExperiment-biasExploration        html  
    TargetExperiment-buildFeaturePanel      html  
    TargetExperiment-buildReport            html  
    TargetExperiment-class                  html  
    TargetExperiment-constructor            html  
    TargetExperiment-getters                html  
    TargetExperiment-initialize             html  
    TargetExperiment-plot                   html  
    TargetExperiment-plotAttrExpl           html  
    TargetExperiment-plotAttrPerform        html  
    TargetExperiment-plotFeatPerform        html  
    TargetExperiment-plotFeature            html  
    TargetExperiment-plotGeneAttrPerFeat    html  
    TargetExperiment-plotMetaDataExpl       html  
    TargetExperiment-plotNtdPercentage      html  
    TargetExperiment-plotRegion             html  
    TargetExperiment-print                  html  
    TargetExperiment-readFrequencies        html  
    TargetExperiment-setters                html  
    TargetExperiment-show                   html  
    TargetExperiment-statistics             html  
    TargetExperiment-summarizePanel         html  
    ampliPanel                              html  
    myCounts                                html  
    pileupCounts                            html  
    plotInOutFeatures                       html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (TarSeqQC)
Making 'packages.html' ... done