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pvac

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

PCA-based gene filtering for Affymetrix arrays


Bioconductor version: Development (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")

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

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 1.51.0
In Bioconductor since BioC 2.8 (R-2.13) (13 years)
License LGPL (>= 2.0)
Depends R (>= 2.8.0)
Imports affy(>= 1.20.0), stats, Biobase
System Requirements
URL
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Suggests pbapply, affydata, ALLMLL, genefilter
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Package Archives

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

Source Package pvac_1.51.0.tar.gz
Windows Binary pvac_1.51.0.zip
macOS Binary (x86_64) pvac_1.51.0.tgz
macOS Binary (arm64)
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