pvac

PCA-based gene filtering for Affymetrix arrays


Bioconductor version: Release (3.19)

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>

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

Installation

To install this package, start R (version "4.4") 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")
PCA-based gene filtering for Affymetrix GeneChips PDF R Script
Reference Manual PDF

Details

biocViews Microarray, OneChannel, QualityControl, Software
Version 1.52.0
In Bioconductor since BioC 2.8 (R-2.13) (13.5 years)
License LGPL (>= 2.0)
Depends R (>= 2.8.0)
Imports affy(>= 1.20.0), stats, Biobase
System Requirements
URL
See More
Suggests pbapply, affydata, ALLMLL, genefilter
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package pvac_1.52.0.tar.gz
Windows Binary (x86_64) pvac_1.52.0.zip
macOS Binary (x86_64) pvac_1.52.0.tgz
macOS Binary (arm64) pvac_1.52.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/pvac
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/pvac
Bioc Package Browser https://code.bioconductor.org/browse/pvac/
Package Short Url https://bioconductor.org/packages/pvac/
Package Downloads Report Download Stats