To install this package, start R and enter:

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

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

affyPLM

   

This package is for version 2.8 of Bioconductor; for the stable, up-to-date release version, see affyPLM.

Methods for fitting probe-level models

Bioconductor version: 2.8

A package that extends and improves the functionality of the base affy package. Routines that make heavy use of compiled code for speed. Central focus is on implementation of methods for fitting probe-level models and tools using these models. PLM based quality assessment tools.

Author: Ben Bolstad <bmb at bmbolstad.com>

Maintainer: Ben Bolstad <bmb at bmbolstad.com>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("affyPLM")

 

PDF AffyExtensions.pdf
PDF MAplots.pdf
PDF QualityAssess.pdf
PDF ThreeStep.pdf
PDF   Reference Manual

Details

biocViews Microarray, OneChannel, Preprocessing, QualityControl, Software
Version 1.28.5
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 11 years)
License GPL (>= 2)
Depends R (>= 2.6.0), affy(>= 1.11.0), Biobase, methods, gcrma, stats, preprocessCore(>= 1.5.1)
Imports
LinkingTo preprocessCore
Suggests affydata
SystemRequirements
Enhances
URL http://bmbolstad.com
Depends On Me RefPlus
Imports Me affyQCReport, arrayQualityMetrics
Suggests Me AffyExpress, affylmGUI, arrayMvout, ArrayTools, BiocCaseStudies, frmaTools, metahdep, oneChannelGUI
Build Report  

Package Archives

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

Package Source affyPLM_1.28.5.tar.gz
Windows Binary affyPLM_1.28.5.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/affyPLM/tree/release-2.8
Package Short Url http://bioconductor.org/packages/affyPLM/
Package Downloads Report Download Stats

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