To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SCAN.UPC")

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

SCAN.UPC

This package is for version 2.11 of Bioconductor; for the stable, up-to-date release version, see SCAN.UPC.

Single-channel array normalization (SCAN)

Bioconductor version: 2.11

SCAN is a microarray normalization method to facilitate personalized-medicine workflows. Rather than processing microarray samples as groups, which can introduce biases and present logistical challenges, SCAN normalizes each sample individually by modeling and removing probe- and array-specific background noise using only data from within each array. (The Universal Probability of expression Codes (UPC) method is an extension of SCAN and will be added to this package soon.)

Author: Stephen R. Piccolo and W. Evan Johnson

Maintainer: Stephen R. Piccolo <stephen.piccolo at hsc.utah.edu>

Citation (from within R, enter citation("SCAN.UPC")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SCAN.UPC")

Documentation

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

browseVignettes("SCAN.UPC")

PDF	R Script	SCAN - Primer
PDF		Reference Manual
Text		LICENSE

Details

biocViews	Microarray, Preprocessing, Software
Version	1.0.0
In Bioconductor since	BioC 2.11 (R-2.15) (3.5 years)
License	MIT
Depends	R (>= 2.14.0), Biobase(>= 2.6.0), oligo, Biostrings
Imports	utils, methods
LinkingTo
Suggests	pd.hg.u95a
SystemRequirements
Enhances
URL	http://bioconductor.org http://jlab.bu.edu/software/scan-upc
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source	SCAN.UPC_1.0.0.tar.gz
Windows Binary	SCAN.UPC_1.0.0.zip
Mac OS X 10.6 (Snow Leopard)
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/SCAN.UPC/tree/release-2.11
Package Short Url	http://bioconductor.org/packages/SCAN.UPC/
Package Downloads Report	Download Stats

Documentation »

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