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

Principal Variance Component Analysis (PVCA)

Bioconductor version: Development (3.20)

This package contains the function to assess the batch sourcs by fitting all "sources" as random effects including two-way interaction terms in the Mixed Model(depends on lme4 package) to selected principal components, which were obtained from the original data correlation matrix. This package accompanies the book "Batch Effects and Noise in Microarray Experiements, chapter 12.

Author: Pierre Bushel <bushel at>

Maintainer: Jianying LI <li11 at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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


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

Batch effect estimation in Microarray data PDF R Script
Reference Manual PDF


biocViews BatchEffect, Microarray, Software
Version 1.45.0
In Bioconductor since BioC 2.12 (R-3.0) (11.5 years)
License LGPL (>= 2.0)
Depends R (>= 2.15.1)
Imports Matrix, Biobase, vsn, stats, lme4
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Follow Installation instructions to use this package in your R session.

Source Package pvca_1.45.0.tar.gz
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macOS Binary (x86_64) pvca_1.45.0.tgz
macOS Binary (arm64) pvca_1.45.0.tgz
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Source Repository (Developer Access) git clone
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