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biomvRCNS

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

Copy Number study and Segmentation for multivariate biological data


Bioconductor version: Development (3.19)

In this package, a Hidden Semi Markov Model (HSMM) and one homogeneous segmentation model are designed and implemented for segmentation genomic data, with the aim of assisting in transcripts detection using high throughput technology like RNA-seq or tiling array, and copy number analysis using aCGH or sequencing.

Author: Yang Du

Maintainer: Yang Du <tooyoung at gmail.com>

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

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("biomvRCNS")

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("biomvRCNS")
biomvRCNS package introduction PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews CopyNumberVariation, Genetics, Microarray, Sequencing, Software, Visualization, aCGH
Version 1.43.1
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License GPL (>= 2)
Depends R (>= 3.5.0), IRanges, GenomicRanges, Gviz
Imports methods, mvtnorm
System Requirements
URL
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Suggests cluster, parallel, GenomicFeatures, dynamicTreeCut, Rsamtools, TxDb.Hsapiens.UCSC.hg19.knownGene
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Package Archives

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

Source Package biomvRCNS_1.43.1.tar.gz
Windows Binary biomvRCNS_1.43.1.zip
macOS Binary (x86_64) biomvRCNS_1.43.1.tgz
macOS Binary (arm64) biomvRCNS_1.43.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/biomvRCNS
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/biomvRCNS
Bioc Package Browser https://code.bioconductor.org/browse/biomvRCNS/
Package Short Url https://bioconductor.org/packages/biomvRCNS/
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