CNPBayes
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see CNPBayes.
Bayesian mixture models for copy number polymorphisms
Bioconductor version: 3.9
Bayesian hierarchical mixture models for batch effects and copy number.
Author: Stephen Cristiano, Jacob Carey, and Rob Scharpf
Maintainer: Jacob Carey <jcarey15 at jhu.edu>
Citation (from within R, enter
citation("CNPBayes")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CNPBayes")
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("CNPBayes")| Implementation of Bayesian mixture models for copy number estimation | R Script | |
| Overview of CNPBayes package | R Script | |
| Overview of CNPBayes package | R Script | |
| Reference Manual |
Details
| biocViews | Bayesian, CopyNumberVariation, Software |
| Version | 1.13.5 |
| In Bioconductor since | BioC 3.2 (R-3.2) (8.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.4.0), IRanges, GenomicRanges |
| Imports | Rcpp (>= 0.12.1), S4Vectors, matrixStats, RColorBrewer, gtools, combinat, GenomeInfoDb(>= 1.11.6), methods, BiocGenerics, graphics, stats, coda, SummarizedExperiment, mclust, reshape2, ggplot2, magrittr, purrr, tidyr, dplyr, tibble, scales, data.table, RcppArmadillo |
| System Requirements | |
| URL | https://github.com/scristia/CNPBayes |
| Bug Reports | https://github.com/scristia/CNPBayes/issues |
See More
| Suggests | testthat, knitr, BiocStyle, rmarkdown, BiocCheck, MASS, VanillaICE, tidyverse |
| Linking To | Rcpp |
| 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 | CNPBayes_1.13.5.tar.gz |
| Windows Binary | CNPBayes_1.13.5.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | CNPBayes_1.13.5.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CNPBayes |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CNPBayes |
| Bioc Package Browser | https://code.bioconductor.org/browse/CNPBayes/ |
| Package Short Url | https://bioconductor.org/packages/CNPBayes/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |