To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("RJMCMCNucleosomes")

In most cases, you don't need to download the package archive at all.

RJMCMCNucleosomes

 

   

Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-read data (MNase-Seq)

Bioconductor version: Release (3.5)

This package does nucleosome positioning using informative Multinomial-Dirichlet prior in a t-mixture with reversible jump estimation of nucleosome positions for genome-wide profiling.

Author: Pascal Belleau [aut], Rawane Samb [aut], Astrid DeschĂȘnes [cre, aut], Khader Khadraoui [aut], Lajmi Lakhal-Chaieb [aut], Arnaud Droit [aut]

Maintainer: Astrid DeschĂȘnes <adeschen at hotmail.com>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("RJMCMCNucleosomes")

Documentation

HTML R Script Nucleosome Positioning
PDF   Reference Manual
Text   NEWS

Details

biocViews Bayesian, BiologicalQuestion, ChIPSeq, Coverage, NucleosomePositioning, Sequencing, Software, StatisticalMethod
Version 1.0.0
In Bioconductor since BioC 3.5 (R-3.4) (< 6 months)
License Artistic-2.0
Depends R (>= 3.4), IRanges, GenomicRanges
Imports Rcpp (>= 0.12.5), consensusSeekeR, BiocGenerics, GenomeInfoDb, S4Vectors, BiocParallel, stats, graphics, methods, grDevices
LinkingTo Rcpp
Suggests BiocStyle, knitr, rmarkdown, nucleoSim, RUnit
SystemRequirements Rcpp
Enhances
URL https://github.com/ArnaudDroitLab/RJMCMCNucleosomes
BugReports https://github.com/ArnaudDroitLab/RJMCMCNucleosomes/issues
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source RJMCMCNucleosomes_1.0.0.tar.gz
Windows Binary RJMCMCNucleosomes_1.0.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) RJMCMCNucleosomes_1.0.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/RJMCMCNucleosomes/tree/release-3.5
Package Short Url http://bioconductor.org/packages/RJMCMCNucleosomes/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: