Meth27QC

Package: Meth27QC
Type: Package
Title: Meth27QC: sample quality analysis, and sample control analysis
Version: 1.1
Date: 2010-12-25
Author: Ling Teng, Chao Chen, Chunyu Liu
Maintainer: Ling Teng <tenglingling@gmail.com>
Description: Meth27QC is a tool for analyzing Illumina Infinium
HumanMethylation27 BeadChip Data and generating QC reports.
This package allows users quickly assess data quality of the
Assay. Users can evaluate the data quality in the way that
Illumina GenomeStudio/BeadStudio recommended based on the
control probes. The package reads files exported from
GenomeStudio/BeadStudio software, generating intensity and
standard deviation plots grouped by the types of the control
probes. Meth27 carries 40 control probes for staining,
hybridization, target removal, extension, bisulfite conversion,
specificity, negative and non-polymorphic controls. Details of
those control probes can be found in the Infinium Assay for
Methylation Protocol Guide from Illumina.We also used the other
non-control probes to plot intensity of detected genes, signal
average for green and red. Outliers can be identified.
Depends: gplots, tcltk
License: GPL-2
Packaged: 2011-02-16 19:10:39 UTC; happyfamily
Repository: CRAN
Date/Publication: 2011-02-18 07:26:56

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'Meth27QC' ...
** R
** inst
** preparing package for lazy loading
Warning: S3 methods 'as.character.tclObj', 'as.character.tclVar', 'as.double.tclObj', 'as.integer.tclObj', 'as.logical.tclObj', 'as.raw.tclObj', 'print.tclObj', '[[.tclArray', '[[<-.tclArray', '$.tclArray', '$<-.tclArray', 'names.tclArray', 'names<-.tclArray', 'length.tclArray', 'length<-.tclArray', 'tclObj.tclVar', 'tclObj<-.tclVar', 'tclvalue.default', 'tclvalue.tclObj', 'tclvalue.tclVar', 'tclvalue<-.default', 'tclvalue<-.tclVar', 'close.tkProgressBar' were declared in NAMESPACE but not found
Error : .onLoad failed in loadNamespace() for 'tcltk', details:
  call: fun(libname, pkgname)
  error: Tcl/Tk support is not available on this system
Error : package 'tcltk' could not be loaded
ERROR: lazy loading failed for package 'Meth27QC'
* removing '/home/ddbj/local/lib64/R/library/Meth27QC'