TEQC

Package: TEQC
Type: Package
Title: Quality control for target capture experiments
Version: 3.12.0
Date: 2016-01-19
Author: M. Hummel, S. Bonnin, E. Lowy, G. Roma
Maintainer: Manuela Hummel <m.hummel@dkfz.de>
Description: Target capture experiments combine hybridization-based (in
solution or on microarrays) capture and enrichment of genomic
regions of interest (e.g. the exome) with high throughput
sequencing of the captured DNA fragments. This package provides
functionalities for assessing and visualizing the quality of
the target enrichment process, like specificity and sensitivity
of the capture, per-target read coverage and so on.
Depends: methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.5),
Rsamtools, hwriter
Imports: Biobase (>= 2.15.1)
License: GPL (>= 2)
LazyLoad: yes
biocViews: QualityControl, Microarray, Sequencing, Genetics
NeedsCompilation: no
Packaged: 2016-05-04 03:53:16 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'TEQC' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'TEQC'
    finding HTML links ... done
    TEQCreport                              html  
    chrom.barplot                           html  
    coverage.GC                             html  
    coverage.correlation                    html  
    coverage.density                        html  
    coverage.hist                           html  
    coverage.plot                           html  
    coverage.target                         html  
    coverage.targetlength.plot              html  
    coverage.uniformity                     html  
    covered.k                               html  
    duplicates.barplot                      html  
    fraction.reads.target                   html  
    fraction.target                         html  
    get.baits                               html  
    get.reads                               html  
    get.targets                             html  
    insert.size.hist                        html  
    make.wigfiles                           html  
    multiTEQCreport                         html  
    reads2pairs                             html  
    readsPerTarget                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (TEQC)
Making 'packages.html' ... done