GLAD
This is the development version of GLAD; for the stable release version, see GLAD.
Gain and Loss Analysis of DNA
Bioconductor version: Development (3.24)
Analysis of array CGH data : detection of breakpoints in genomic profiles and assignment of a status (gain, normal or loss) to each chromosomal regions identified.
Author: Philippe Hupe
Maintainer: Philippe Hupe <glad at curie.fr>
citation("GLAD")):
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")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("GLAD")
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("GLAD")| GLAD | R Script | |
| Reference Manual |
Details
| biocViews | CopyNumberVariation, Microarray, Software |
| Version | 2.77.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 21 years) |
| License | GPL-2 |
| Depends | R (>= 2.10) |
| Imports | aws |
| System Requirements | gsl. Note: users should have GSL installed. Windows users: 'consult the README file available in the inst directory of the source distribution for necessary configuration instructions'. |
| URL | http://bioinfo.curie.fr |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | ITALICS |
| Imports Me | ITALICS, MANOR |
| Suggests Me | aroma.cn, aroma.core |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GLAD_2.77.0.tar.gz |
| Windows Binary (x86_64) | GLAD_2.77.0.zip |
| macOS Binary (big-sur-x86_64) | GLAD_2.77.0.tgz |
| macOS Binary (sonoma-arm64) | GLAD_2.77.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GLAD |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GLAD |
| Bioc Package Browser | https://code.bioconductor.org/browse/GLAD/ |
| Package Short Url | https://bioconductor.org/packages/GLAD/ |
| Package Downloads Report | Download Stats |