pvac

DOI: 10.18129/B9.bioc.pvac    

PCA-based gene filtering for Affymetrix arrays

Bioconductor version: Release (3.15)

The package contains the function for filtering genes by the proportion of variation accounted for by the first principal component (PVAC).

Author: Jun Lu and Pierre R. Bushel

Maintainer: Jun Lu <jlu276 at gmail.com>, Pierre R. Bushel <bushel at niehs.nih.gov>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("pvac")

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

Documentation

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

browseVignettes("pvac")

 

PDF	R Script	PCA-based gene filtering for Affymetrix GeneChips
PDF		Reference Manual

Details

biocViews	Microarray, OneChannel, QualityControl, Software
Version	1.44.0
In Bioconductor since	BioC 2.8 (R-2.13) (11.5 years)
License	LGPL (>= 2.0)
Depends	R (>= 2.8.0)
Imports	affy(>= 1.20.0), stats, Biobase
LinkingTo
Suggests	pbapply, affydata, ALLMLL, genefilter
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	pvac_1.44.0.tar.gz
Windows Binary	pvac_1.44.0.zip (64-bit only)
macOS Binary (x86_64)	pvac_1.44.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/pvac
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/pvac
Package Short Url	https://bioconductor.org/packages/pvac/
Package Downloads Report	Download Stats