Registration Open for Bioc2024 July 24-26


Probe region expression estimation for RNA-seq data for improved microarray comparability

Bioconductor version: Release (3.19)

The prebs package aims at making RNA-sequencing (RNA-seq) data more comparable to microarray data. The comparability is achieved by summarizing sequencing-based expressions of probe regions using a modified version of RMA algorithm. The pipeline takes mapped reads in BAM format as an input and produces either gene expressions or original microarray probe set expressions as an output.

Author: Karolis Uziela and Antti Honkela

Maintainer: Karolis Uziela <karolis.uziela at>

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


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

if (!require("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:

prebs User Guide PDF R Script
Reference Manual PDF


biocViews GeneExpression, ImmunoOncology, Microarray, Preprocessing, RNASeq, Sequencing, Software
Version 1.44.0
In Bioconductor since BioC 2.12 (R-3.0) (11.5 years)
License Artistic-2.0
Depends R (>= 2.14.0), GenomicAlignments, affy, RPA
Imports parallel, methods, stats, GenomicRanges(>= 1.13.3), IRanges, Biobase, GenomeInfoDb, S4Vectors
System Requirements
See More
Suggests prebsdata, hgu133plus2cdf, hgu133plus2probe
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package prebs_1.44.0.tar.gz
Windows Binary
macOS Binary (x86_64) prebs_1.44.0.tgz
macOS Binary (arm64) prebs_1.44.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats