CGHcall
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see CGHcall.
Calling aberrations for array CGH tumor profiles.
Bioconductor version: 3.9
Calls aberrations for array CGH data using a six state mixture model as well as several biological concepts that are ignored by existing algorithms. Visualization of profiles is also provided.
Author: Mark van de Wiel, Sjoerd Vosse
Maintainer: Mark van de Wiel <mark.vdwiel at vumc.nl>
citation("CGHcall")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CGHcall")
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("CGHcall")| CGHcall | R Script | |
| Reference Manual |
Details
| biocViews | Microarray, Preprocessing, Software, Visualization |
| Version | 2.46.0 |
| In Bioconductor since | BioC 2.1 (R-2.6) (16.5 years) |
| License | GPL (http://www.gnu.org/copyleft/gpl.html) |
| Depends | R (>= 2.0.0), impute(>= 1.8.0), DNAcopy(>= 1.6.0), methods, Biobase, CGHbase(>= 1.15.1), snowfall |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | CGHnormaliter, focalCall, GeneBreak |
| Imports Me | CGHnormaliter, QDNAseq |
| Suggests Me | sigaR |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CGHcall_2.46.0.tar.gz |
| Windows Binary | CGHcall_2.46.0.zip |
| Mac OS X 10.11 (El Capitan) | CGHcall_2.46.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CGHcall |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CGHcall |
| Bioc Package Browser | https://code.bioconductor.org/browse/CGHcall/ |
| Package Short Url | https://bioconductor.org/packages/CGHcall/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |