DOI: 10.18129/B9.bioc.PAA    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see PAA.

PAA (Protein Array Analyzer)

Bioconductor version: 3.8

PAA imports single color (protein) microarray data that has been saved in gpr file format - esp. ProtoArray data. After preprocessing (background correction, batch filtering, normalization) univariate feature preselection is performed (e.g., using the "minimum M statistic" approach - hereinafter referred to as "mMs"). Subsequently, a multivariate feature selection is conducted to discover biomarker candidates. Therefore, either a frequency-based backwards elimination aproach or ensemble feature selection can be used. PAA provides a complete toolbox of analysis tools including several different plots for results examination and evaluation.

Author: Michael Turewicz [aut, cre], Martin Eisenacher [ctb, cre]

Maintainer: Michael Turewicz <michael.turewicz at>, Martin Eisenacher <martin.eisenacher at>

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


To install this package, start R (version "3.5") and enter:

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

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:



PDF R Script PAA tutorial
PDF PAA_1.7.1.pdf
PDF   Reference Manual
Text   NEWS


biocViews Classification, Microarray, OneChannel, Proteomics, Software
Version 1.16.0
In Bioconductor since BioC 3.0 (R-3.1) (4.5 years)
License BSD_3_clause + file LICENSE
Depends R (>= 3.2.0), Rcpp (>= 0.11.6)
Imports e1071, gplots, gtools, limma, MASS, mRMRe, randomForest, ROCR, sva
LinkingTo Rcpp
Suggests BiocStyle, RUnit, BiocGenerics, vsn
SystemRequirements C++ software package Random Jungle
Depends On Me
Imports Me
Suggests Me
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Source Package PAA_1.16.0.tar.gz
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