cnvGSA
This is the released version of cnvGSA; for the devel version, see cnvGSA.
Gene Set Analysis of (Rare) Copy Number Variants
Bioconductor version: Release (3.23)
This package is intended to facilitate gene-set association with rare CNVs in case-control studies.
Author: Daniele Merico <daniele.merico at gmail.com>, Robert Ziman <rziman at gmail.com>; packaged by Joseph Lugo <joseph.r.lugo at gmail.com>
Maintainer: Joseph Lugo <joseph.r.lugo at gmail.com>
citation("cnvGSA")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("cnvGSA")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("cnvGSA")| cnvGSA - Gene-Set Analysis of Rare Copy Number Variants | |
| cnvGSAUsersGuide.pdf | |
| Reference Manual |
Details
| biocViews | MultipleComparison, Software |
| Version | 1.56.0 |
| In Bioconductor since | BioC 2.10 (R-2.15) (14.5 years) |
| License | LGPL |
| Depends | brglm, doParallel, foreach, GenomicRanges, methods, splitstackshape |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | cnvGSAdata, org.Hs.eg.db |
| Linking To | |
| Enhances | |
| Depends On Me | cnvGSAdata |
| 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 | cnvGSA_1.56.0.tar.gz |
| Windows Binary (x86_64) | cnvGSA_1.56.0.zip |
| macOS Binary (big-sur-x86_64) | cnvGSA_1.56.0.tgz |
| macOS Binary (sonoma-arm64) | cnvGSA_1.56.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/cnvGSA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/cnvGSA |
| Bioc Package Browser | https://code.bioconductor.org/browse/cnvGSA/ |
| Package Short Url | https://bioconductor.org/packages/cnvGSA/ |
| Package Downloads Report | Download Stats |