aCGH
Classes and functions for Array Comparative Genomic Hybridization data.
Bioconductor version: 2.5
Functions for reading aCGH data from image analysis output files and clone information files, creation of aCGH S3 objects for storing these data. Basic methods for accessing/replacing, subsetting, printing and plotting aCGH objects.
Author: Jane Fridlyand <jfridlyand at cc.ucsf.edu>, Peter Dimitrov <dimitrov at stat.Berkeley.EDU>
Maintainer: Peter Dimitrov <dimitrov at stat.Berkeley.EDU>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("aCGH")
To cite this package in a publication, start R and enter:
citation("aCGH")
Documentation
| R Script | aCGH Overview | |
| Reference Manual |
Details
| biocViews | CopyNumberVariants, DataImport, Genetics |
| Depends | R (>= 1.8.0), cluster, survival, multtest |
| Imports | Biobase, cluster, grDevices, graphics, methods, multtest, stats, survival, splines, utils |
| Suggests | |
| System Requirements | |
| License | GPL |
| URL | |
| Depends On Me | snapCGH |
| Imports Me | |
| Suggests Me | beadarraySNP |
| Version | 1.22.0 |
| Since | Bioconductor 1.6 (R-2.1) or earlier |
Package Downloads
| Package Source | aCGH_1.22.0.tar.gz |
| Windows Binary | aCGH_1.22.0.zip (32- & 64-bit) |
| MacOS 10.5 (Leopard) binary | aCGH_1.22.0.tgz |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Annotation
- Variants
- Flow Cytometry and other assays
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