Journal
BIOINFORMATICS
Volume 32, Issue 10, Pages 1577-1579Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btw037
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Funding
- P.U.R.E., a project of Nordrhein-Westfalen, a federal state of Germany
- de.NBI, a project of the German Federal Ministry of Education and Research (BMBF) [FKZ 031 A 534A]
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The R/Bioconductor package Protein Array Analyzer (PAA) facilitates a flexible analysis of protein microarrays for biomarker discovery (esp., ProtoArrays). It provides a complete data analysis workflow including preprocessing and quality control, uni- and multivariate feature selection as well as several different plots and results tables to outline and evaluate the analysis results. As a main feature, PAA's multivariate feature selection methods are based on recursive feature elimination (e.g. SVM-recursive feature elimination, SVM-RFE) with stability ensuring strategies such as ensemble feature selection. This enables PAA to detect stable and reliable biomarker candidate panels.
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