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CNVgears

This is the development version of CNVgears; for the stable release version, see CNVgears.

A Framework of Functions to Combine, Analize and Interpret CNVs Calling Results

Bioconductor version: Development (3.18)

This package contains a set of functions to perform several type of processing and analysis on CNVs calling pipelines/algorithms results in an integrated manner and regardless of the raw data type (SNPs array or NGS). It provides functions to combine multiple CNV calling results into a single object, filter them, compute CNVRs (CNV Regions) and inheritance patterns, detect genic load, and more. The package is best suited for studies in human family-based cohorts.

Author: Simone Montalbano [cre, aut]

Maintainer: Simone Montalbano <simone.montalbano at protonmail.com>

Citation (from within R, enter citation("CNVgears")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("CNVgears")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews Preprocessing, Software, WorkflowStep
Version 1.9.0
In Bioconductor since BioC 3.13 (R-4.1) (2 years)
License GPL-3
Depends R (>= 4.1), data.table
Imports ggplot2
Linking To
Suggests VariantAnnotation, DelayedArray, knitr, biomaRt, evobiR, rmarkdown, devtools, cowplot, usethis, scales, testthat, GenomicRanges, cn.mops, R.utils
System Requirements
Enhances
URL
Bug Reports https://github.com/SinomeM/CNVgears/issues
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary CNVgears_1.9.0.zip
macOS Binary (x86_64) CNVgears_1.9.0.tgz
macOS Binary (arm64) CNVgears_1.9.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CNVgears
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CNVgears
Bioc Package Browser https://code.bioconductor.org/browse/CNVgears/
Package Short Url https://bioconductor.org/packages/CNVgears/
Package Downloads Report Download Stats