PAA
This is thereleased version of PAA; for the devel version, seePAA.
PAA (Protein Array Analyzer)
DOI: 10.18129/B9.bioc.PAA
Bioconductor version: Release (3.22)
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 rub.de>, Martin Eisenacher <martin.eisenacher at rub.de>
citation("PAA")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("PAA")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("PAA")| PAA tutorial | R Script | |
| PAA_1.7.1.pdf | ||
| Reference Manual | ||
| README | Text | |
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification,Microarray,OneChannel,Proteomics,Software |
| Version | 1.44.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) (11 years) |
| License | BSD_3_clause + fileLICENSE |
| Depends | R (>= 3.2.0),Rcpp (>= 0.11.6) |
| Imports | e1071,gplots,gtools,limma,MASS,mRMRe,randomForest,ROCR,sva |
| System Requirements | C++ software package Random Jungle |
| URL | http://www.ruhr-uni-bochum.de/mpc/software/PAA/ |
See More
| Suggests | BiocStyle,RUnit,BiocGenerics,vsn |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | PAA_1.44.0.tar.gz |
| Windows Binary (x86_64) | PAA_1.44.0.zip |
| macOS Binary (x86_64) | PAA_1.44.0.tgz |
| macOS Binary (arm64) | PAA_1.44.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PAA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/PAA |
| Bioc Package Browser | https://code.bioconductor.org/browse/PAA/ |
| Package Short Url | https://bioconductor.org/packages/PAA/ |
| Package Downloads Report | Download Stats |