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

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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("prebs")
AuthorKarolis Uziela and Antti Honkela
Bioconductor views GeneExpression Microarray Preprocessing RNASeq Sequencing
Date of publicationNone
MaintainerKarolis Uziela <karolis.uziela@scilifelab.se>
LicenseArtistic-2.0
Version1.16.0

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/PREBS.R
build
build/vignette.rds
inst
inst/CITATION
inst/NEWS
inst/doc
inst/doc/prebs.R
inst/doc/prebs.Rnw
inst/doc/prebs.pdf
man
man/calc_prebs.Rd man/prebs.Rd
vignettes
vignettes/my_references.bib
vignettes/prebs.Rnw

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