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RJMCMCNucleosomes
This is thereleased version of RJMCMCNucleosomes; for the devel version, seeRJMCMCNucleosomes.
Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-read data (MNase-Seq)
Bioconductor version: Release (3.22)
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 Deschênes [cre, aut], Khader Khadraoui [aut], Lajmi Lakhal-Chaieb [aut], Arnaud Droit [aut]
Maintainer: Astrid Deschênes <adeschen at hotmail.com>
citation("RJMCMCNucleosomes")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("RJMCMCNucleosomes")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RJMCMCNucleosomes")| Nucleosome Positioning | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Bayesian,BiologicalQuestion,ChIPSeq,Coverage,NucleosomePositioning,Sequencing,Software,StatisticalMethod |
| Version | 1.34.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (8.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5),IRanges,GenomicRanges |
| Imports | Rcpp (>= 0.12.5),consensusSeekeR,BiocGenerics,Seqinfo,S4Vectors(>= 0.23.10),BiocParallel, stats, graphics, methods, grDevices |
| System Requirements | Rcpp |
| URL | https://github.com/ArnaudDroitLab/RJMCMCNucleosomes |
| Bug Reports | https://github.com/ArnaudDroitLab/RJMCMCNucleosomes/issues |
See More
| Suggests | BiocStyle,knitr,rmarkdown,nucleoSim,RUnit |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | RJMCMCNucleosomes_1.34.0.tar.gz |
| Windows Binary (x86_64) | RJMCMCNucleosomes_1.34.0.zip (64-bit only) |
| macOS Binary (x86_64) | RJMCMCNucleosomes_1.34.0.tgz |
| macOS Binary (arm64) | RJMCMCNucleosomes_1.34.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/RJMCMCNucleosomes |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RJMCMCNucleosomes |
| Bioc Package Browser | https://code.bioconductor.org/browse/RJMCMCNucleosomes/ |
| Package Short Url | https://bioconductor.org/packages/RJMCMCNucleosomes/ |
| Package Downloads Report | Download Stats |