CGHbase
This is the released version of CGHbase; for the devel version, see CGHbase.
CGHbase: Base functions and classes for arrayCGH data analysis.
Bioconductor version: Release (3.23)
Contains functions and classes that are needed by arrayCGH packages.
Author: Sjoerd Vosse, Mark van de Wiel
Maintainer: Mark van de Wiel <mark.vdwiel at vumc.nl>
citation("CGHbase")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CGHbase")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | CopyNumberVariation, Infrastructure, Microarray, Software |
| Version | 1.72.0 |
| In Bioconductor since | BioC 2.3 (R-2.8) (18 years) |
| License | GPL |
| Depends | R (>= 2.10), methods, Biobase(>= 2.5.5), marray |
| Imports | |
| System Requirements | |
| URL | https://github.com/tgac-vumc/CGHbase |
| Bug Reports | https://github.com/tgac-vumc/CGHbase/issues |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | CGHcall, CGHnormaliter, CGHregions, GeneBreak |
| Imports Me | CGHnormaliter, QDNAseq |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CGHbase_1.72.0.tar.gz |
| Windows Binary (x86_64) | CGHbase_1.72.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | CGHbase_1.72.0.tgz |
| macOS Binary (sonoma-arm64) | CGHbase_1.72.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CGHbase |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CGHbase |
| Bioc Package Browser | https://code.bioconductor.org/browse/CGHbase/ |
| Package Short Url | https://bioconductor.org/packages/CGHbase/ |
| Package Downloads Report | Download Stats |