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affyPLM

This is the development version of affyPLM; for the stable release version, see affyPLM.

Methods for fitting probe-level models

Bioconductor version: Development (3.18)

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 (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("affyPLM")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews Microarray, OneChannel, Preprocessing, QualityControl, Software
Version 1.77.1
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 18 years)
License GPL (>= 2)
Depends R (>= 2.6.0), BiocGenerics(>= 0.3.2), affy(>= 1.11.0), Biobase(>= 2.17.8), gcrma, stats, preprocessCore(>= 1.5.1)
Imports zlibbioc, graphics, grDevices, methods
Linking To preprocessCore
Suggests affydata, MASS
System Requirements
Enhances
URL https://github.com/bmbolstad/affyPLM
See More
Depends On Me RefPlus
Imports Me affylmGUI, arrayQualityMetrics, mimager
Suggests Me arrayMvout, BiocGenerics, frmaTools, metahdep, piano
Links To Me
Build Report  

Package Archives

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

Source Package
Windows Binary affyPLM_1.77.1.zip
macOS Binary (x86_64) affyPLM_1.77.1.tgz
macOS Binary (arm64) affyPLM_1.77.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/affyPLM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/affyPLM
Bioc Package Browser https://code.bioconductor.org/browse/affyPLM/
Package Short Url https://bioconductor.org/packages/affyPLM/
Package Downloads Report Download Stats