To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("Harshlight")

In most cases, you don't need to download the package archive at all.

Harshlight

 

A "corrective make-up" program for microarray chips

Bioconductor version: Release (3.1)

The package is used to detect extended, diffuse and compact blemishes on microarray chips. Harshlight automatically marks the areas in a collection of chips (affybatch objects) and a corrected AffyBatch object is returned, in which the defected areas are substituted with NAs or the median of the values of the same probe in the other chips in the collection. The new version handle the substitute value as whole matrix to solve the memory problem.

Author: Mayte Suarez-Farinas, Maurizio Pellegrino, Knut M. Wittkowski, Marcelo O. Magnasco

Maintainer: Maurizio Pellegrino <mpellegri at berkeley.edu>

Citation (from within R, enter citation("Harshlight")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("Harshlight")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Harshlight")

 

PDF R Script Harshlight
PDF   Reference Manual

Details

biocViews Microarray, OneChannel, Preprocessing, QualityControl, ReportWriting, Software
Version 1.40.0
In Bioconductor since BioC 1.9 (R-2.4) (9 years)
License GPL (>= 2)
Depends R (>= 2.10)
Imports affy, altcdfenvs, Biobase, stats, utils
LinkingTo
Suggests
SystemRequirements
Enhances
URL http://asterion.rockefeller.edu/Harshlight/
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source Harshlight_1.40.0.tar.gz
Windows Binary Harshlight_1.40.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) Harshlight_1.40.0.tgz
Mac OS X 10.9 (Mavericks) Harshlight_1.40.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/Harshlight/tree/release-3.1
Package Short Url http://bioconductor.org/packages/Harshlight/
Package Downloads Report Download Stats

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