Bioconductor version: Release (3.14)
Detection of copy number variants (CNV) from exome sequencing samples, including unpaired samples. The package implements a hidden Markov model which 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 <michaelisaiahlove at gmail.com>
Citation (from within R,
enter citation("exomeCopy")
):
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("exomeCopy")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("exomeCopy")
R Script | Copy number variant detection in exome sequencing data | |
Reference Manual | ||
Text | NEWS |
biocViews | CopyNumberVariation, Genetics, Sequencing, Software |
Version | 1.40.0 |
In Bioconductor since | BioC 2.9 (R-2.14) (10.5 years) |
License | GPL (>= 2) |
Depends | IRanges(>= 2.5.27), GenomicRanges(>= 1.23.16), Rsamtools |
Imports | stats4, methods, GenomeInfoDb |
LinkingTo | |
Suggests | Biostrings |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | cn.mops, CNVPanelizer, contiBAIT |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | exomeCopy_1.40.0.tar.gz |
Windows Binary | exomeCopy_1.40.0.zip |
macOS 10.13 (High Sierra) | exomeCopy_1.40.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/exomeCopy |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/exomeCopy |
Package Short Url | https://bioconductor.org/packages/exomeCopy/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |
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