Welcome to the new bioconductor.org!

CNVgears

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

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 (3.19)

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 "4.4") 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 1.11.1
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-3
Depends R (>= 4.1), data.table
Imports ggplot2
System Requirements
URL
Bug Reports https://github.com/SinomeM/CNVgears/issues
See More
Suggests VariantAnnotation, DelayedArray, knitr, biomaRt, evobiR, rmarkdown, devtools, cowplot, usethis, scales, testthat, GenomicRanges, cn.mops, R.utils
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package
Windows Binary CNVgears_1.11.1.zip
macOS Binary (x86_64) CNVgears_1.11.1.tgz
macOS Binary (arm64) CNVgears_1.11.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CNVgears
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CNVgears
Package Short Url https://bioconductor.org/packages/CNVgears/
Package Downloads Report Download Stats