oligo
Preprocessing tools for oligonucleotide arrays
Bioconductor version: Release (3.20)
A package to analyze oligonucleotide arrays (expression/SNP/tiling/exon) at probe-level. It currently supports Affymetrix (CEL files) and NimbleGen arrays (XYS files).
Author: Benilton Carvalho and Rafael Irizarry
Maintainer: Benilton Carvalho <benilton at unicamp.br>
Citation (from within R, enter
citation("oligo")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("oligo")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("oligo")| oligo User's Guide | |
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | DataImport, DifferentialExpression, ExonArray, GeneExpression, Microarray, OneChannel, Preprocessing, SNP, Software, TwoChannel |
| Version | 1.70.0 |
| In Bioconductor since | BioC 2.0 (R-2.5) (17.5 years) |
| License | LGPL (>= 2) |
| Depends | R (>= 3.2.0), BiocGenerics(>= 0.13.11), oligoClasses(>= 1.29.6), Biobase(>= 2.27.3), Biostrings(>= 2.35.12) |
| Imports | affyio(>= 1.35.0), affxparser(>= 1.39.4), DBI (>= 0.3.1), ff, graphics, methods, preprocessCore(>= 1.29.0), RSQLite (>= 1.0.0), splines, stats, stats4, utils, zlibbioc |
| System Requirements | |
| URL | https://github.com/benilton/oligo |
See More
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | oligo_1.70.0.tar.gz |
| Windows Binary (x86_64) | oligo_1.70.0.zip (64-bit only) |
| macOS Binary (x86_64) | oligo_1.70.0.tgz |
| macOS Binary (arm64) | oligo_1.69.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/oligo |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/oligo |
| Bioc Package Browser | https://code.bioconductor.org/browse/oligo/ |
| Package Short Url | https://bioconductor.org/packages/oligo/ |
| Package Downloads Report | Download Stats |