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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("exomeCopy")
In most cases, you don't need to download the package archive at all.
exomeCopy
|
This package is for version 2.9 of Bioconductor; for the stable, up-to-date release version, see exomeCopy.
Detection of CNV in exome/targeted sequencing data
Bioconductor version: 2.9
A hidden Markov model for the detection of copy number variants (CNV) in exome/targeted sequencing read depth data. The package uses positional covariates, such as background read depth and GC-content, to simultaneously normalize and segment the samples into regions of constant copy count.
Author: Michael Love
Maintainer: Michael Love <love at molgen.mpg.de>
Citation (from within R,
enter citation("exomeCopy")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("exomeCopy")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("exomeCopy")
| exomeCopy.pdf | ||
| Reference Manual |
Details
| biocViews | CopyNumberVariants, Genetics, HighThroughputSequencing, Sequencing, Software |
| Version | 1.0.3 |
| In Bioconductor since | BioC 2.9 (R-2.14) (4.5 years) |
| License | GPL (>= 2) |
| Depends | methods, graphics, IRanges, GenomicRanges, Rsamtools(>= 1.4.3) |
| Imports | |
| LinkingTo | |
| Suggests | Biostrings |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | exomeCopy_1.0.3.tar.gz |
| Windows Binary | exomeCopy_1.0.3.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | |
| Mac OS X 10.9 (Mavericks) | |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/exomeCopy/tree/release-2.9 |
| Package Short Url | http://bioconductor.org/packages/exomeCopy/ |
| Package Downloads Report | Download Stats |
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