beadarray (original) (raw)
This is the released version of beadarray; for the devel version, seebeadarray.
Quality assessment and low-level analysis for Illumina BeadArray data
Bioconductor version: Release (3.22)
The package is able to read bead-level data (raw TIFFs and text files) output by BeadScan as well as bead-summary data from BeadStudio. Methods for quality assessment and low-level analysis are provided.
Author: Mark Dunning, Mike Smith, Jonathan Cairns, Andy Lynch, Matt Ritchie
Maintainer: Mark Dunning <m.j.dunning at sheffield.ac.uk>
Citation (from within R, enter citation("beadarray")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("beadarray")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
Details
| biocViews | Microarray, OneChannel, Preprocessing, QualityControl, Software |
|---|---|
| Version | 2.59.0 |
| In Bioconductor since | BioC 1.8 (R-2.3) (19.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 2.13.0), BiocGenerics(>= 0.3.2), Biobase(>= 2.17.8), hexbin |
| Imports | BeadDataPackR, limma, AnnotationDbi, stats4, reshape2, GenomicRanges, IRanges, illuminaio, methods, ggplot2 |
| System Requirements | |
| URL |
See More
| Suggests | lumi, vsn, affy, hwriter, beadarrayExampleData, illuminaHumanv3.db, gridExtra, BiocStyle, TxDb.Hsapiens.UCSC.hg19.knownGene, ggbio, Nozzle.R1, knitr |
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| Depends On Me | |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
|---|---|
| Windows Binary (x86_64) | beadarray_2.59.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/beadarray |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/beadarray |
| Bioc Package Browser | https://code.bioconductor.org/browse/beadarray/ |
| Package Short Url | https://bioconductor.org/packages/beadarray/ |
| Package Downloads Report | Download Stats |