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 2.10 of Bioconductor; for the stable, up-to-date release version, see affyPLM.

Methods for fitting probe-level models

Bioconductor version: 2.10

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 affyPLM: Advanced use of the MAplot function
PDF affyPLM: Fitting Probe Level Models
PDF affyPLM: Model Based QC Assessment of Affymetrix GeneChips
PDF affyPLM: the threestep function
PDF Reference Manual

Details

biocViews Microarray, OneChannel, Preprocessing, QualityControl, Software
Version 1.32.0
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, gcrma, stats, preprocessCore(>= 1.5.1)
Imports zlibbioc, methods
LinkingTo preprocessCore
Suggests affydata, MASS
SystemRequirements
Enhances
URL http://bmbolstad.com
Depends On Me RefPlus
Imports Me affyQCReport, arrayQualityMetrics, virtualArray
Suggests Me AffyExpress, affylmGUI, arrayMvout, ArrayTools, BiocCaseStudies, BiocGenerics, frmaTools, ggbio, metahdep, oneChannelGUI
Build Report

Package Archives

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

Package Source affyPLM_1.32.0.tar.gz
Windows Binary affyPLM_1.32.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/affyPLM/tree/release-2.10
Package Short Url http://bioconductor.org/packages/affyPLM/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

AltStyle によって変換されたページ (->オリジナル) /