blima
This is the development version of blima; for the stable release version, see blima.
All Bioconductor versions of blima
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0
Tools for the preprocessing and analysis of the Illumina microarrays on the detector (bead) level
Bioconductor version: 3.24 · Package version: 1.47.0
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 gmail.com>
Citation
From within R, enter citation("blima"):
Vojtěch Kulvait. blima: Tools for the preprocessing and analysis of the Illumina microarrays on the detector (bead) level. doi:10.18129/B9.bioc.blima, R package version 1.47.0, https://bioconductor.org/packages/blima.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("blima")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.47.0 |
| License | GPL-3 |
| URL | https://bitbucket.org/kulvait/blima |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.0 (R-3.1) (11 years) |
| Downloads rank | 1013 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DifferentialExpression, GeneExpression, GeneRegulation, Microarray, Normalization, Preprocessing, Software |
| Package Short Url | https://bioconductor.org/packages/blima/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("blima")| blima an R package for Bead Level Illumina Microarray Analysis | R Script | |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | blima_1.47.0.tar.gz |
| Windows binary (x86_64) | blima_1.47.0.zip |
| macOS binary (arm64) | blima_1.47.0.tgz |
| macOS binary (x86_64) | blima_1.47.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/blima |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/blima |
| Package Downloads Report | Download Stats |
Dependencies
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
Reverse dependencies
Suggests Me (1): blimaTestingData