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source("http://bioconductor.org/biocLite.R")
biocLite("CGHnormaliter")
In most cases, you don't need to download the package archive at all.
CGHnormaliter
Normalization of array CGH data with imbalanced aberrations.
Bioconductor version: 2.14
Normalization and centralization of array comparative genomic hybridization (aCGH) data. The algorithm uses an iterative procedure that effectively eliminates the influence of imbalanced copy numbers. This leads to a more reliable assessment of copy number alterations (CNAs).
Author: Bart P.P. van Houte, Thomas W. Binsl, Hannes Hettling
Maintainer: Bart P.P. van Houte <bvhoute at few.vu.nl>
Citation (from within R,
enter citation("CGHnormaliter")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("CGHnormaliter")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CGHnormaliter")
| R Script | CGHnormaliter | |
| Reference Manual |
Details
| biocViews | Microarray, Preprocessing, Software |
| Version | 1.18.0 |
| In Bioconductor since | BioC 2.5 (R-2.10) |
| License | GPL (>= 3) |
| Depends | CGHcall(>= 2.17.0), CGHbase(>= 1.15.0) |
| Imports | Biobase, CGHbase, CGHcall, methods, stats, utils |
| Suggests | |
| System Requirements | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | CGHnormaliter_1.18.0.tar.gz |
| Windows Binary | CGHnormaliter_1.18.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | CGHnormaliter_1.18.0.tgz |
| Mac OS X 10.9 (Mavericks) | CGHnormaliter_1.18.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
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