biomvRCNS

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see biomvRCNS.

Copy Number study and Segmentation for multivariate biological data

Bioconductor version: 3.21

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 "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews CopyNumberVariation, Genetics, Microarray, Sequencing, Software, Visualization, aCGH

Version 1.48.0

In Bioconductor since BioC 2.12 (R-3.0) (12.5 years)

License GPL (>= 2)

Depends IRanges, GenomicRanges, Gviz

Imports methods, mvtnorm

System Requirements

URL

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_1.48.0.tar.gz

Windows Binary (x86_64) biomvRCNS_1.48.0.zip

macOS Binary (x86_64) biomvRCNS_1.48.0.tgz

macOS Binary (arm64) biomvRCNS_1.48.0.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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