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 package is for version 3.19 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see CNVgears.
A Framework of Functions to Combine, Analize and Interpret CNVs Calling Results
Bioconductor version: 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("CNVgears")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CNVgears")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | Preprocessing, Software, WorkflowStep |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3.5 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 (x86_64) | CNVgears_1.12.0.zip |
| macOS Binary (x86_64) | CNVgears_1.12.0.tgz |
| macOS Binary (arm64) | CNVgears_1.12.0.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 |