panp

Presence-Absence Calls from Negative Strand Matching Probesets

Bioconductor version: Release (2.7)

A function to make gene presence/absence calls based on distance from negative strand matching probesets (NSMP) which are derived from Affymetrix annotation. PANP is applied after gene expression values are created, and therefore can be used after any preprocessing method such as MAS5 or GCRMA, or PM-only methods like RMA. NSMP sets have been established for the HGU133A and HGU133-Plus-2.0 chipsets to date.

Author: Peter Warren

Maintainer: Peter Warren

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("panp")    

Documentation

PDF

R Script

gene presence/absence calls

Reference Manual

Details

biocViews	Software
Depends	R, affy, Biobase
Imports	Biobase, methods, stats, utils
Suggests
System Requirements
License	GPL (>= 2)
URL
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Imports Me
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Version	1.20.1

Package Downloads

Package Source	panp_1.20.1.tar.gz
Windows Binary	panp_1.20.1.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	panp_1.20.1.tgz
Package Downloads Report	Download Stats