normalize450K

Package: normalize450K
Type: Package
Title: Preprocessing of Illumina Infinium 450K data
Version: 1.0.0
Date: 2015-08-31
Author: Jonathan Alexander Heiss
Maintainer: Jonathan Alexander Heiss <jonathan.heiss@posteo.de>
Description: Precise measurements are important for epigenome-wide studies investigating DNA methylation in whole blood samples, where effect sizes are expected to be small in magnitude. The 450K platform is often affected by batch effects and proper preprocessing is recommended. This package provides functions to read and normalize 450K '.idat' files. The normalization corrects for dye bias and biases related to signal intensity and methylation of probes using local regression. No adjustment for probe type bias is performed to avoid the trade-off of precision for accuracy of beta-values.
Depends: R (>= 3.3), Biobase, illuminaio, quadprog
Imports: utils
License: BSD_2_clause + file LICENSE
biocViews: Normalization, DNAMethylation, Microarray, TwoChannel,
Preprocessing, MethylationArray
NeedsCompilation: no
Packaged: 2016-05-04 06:42:17 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'normalize450K' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'normalize450K'
    finding HTML links ... done
    estimateLC                              html  
    read_and_normalize450K                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (normalize450K)
Making 'packages.html' ... done