DOI: 10.18129/B9.bioc.blima    

This is the development version of blima; for the stable release version, see blima.

Tools for the preprocessing and analysis of the Illumina microarrays on the detector (bead) level

Bioconductor version: Development (3.7)

Package blima includes several algorithms for the preprocessing of Illumina microarray data. It focuses to the bead level analysis and provides novel approach to the quantile normalization of the vectors of unequal lengths. It provides variety of the methods for background correction including background subtraction, RMA like convolution and background outlier removal. It also implements variance stabilizing transformation on the bead level. There are also implemented methods for data summarization. It also provides the methods for performing T-tests on the detector (bead) level and on the probe level for differential expression testing.

Author: Vojtěch Kulvait

Maintainer: Vojtěch Kulvait <kulvait at>

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biocViews DifferentialExpression, GeneExpression, GeneRegulation, Microarray, Normalization, Preprocessing, Software
Version 1.13.0
In Bioconductor since BioC 3.0 (R-3.1) (3.5 years)
License GPL-3
Depends R (>= 3.3)
Imports beadarray(>= 2.0.0), Biobase(>= 2.0.0), Rcpp (>= 0.12.8), BiocGenerics, grDevices, stats, graphics
LinkingTo Rcpp
Suggests xtable, blimaTestingData, BiocStyle, illuminaHumanv4.db, lumi, knitr
Depends On Me
Imports Me
Suggests Me blimaTestingData
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