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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
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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 Deschênes [cre, aut], Khader Khadraoui [aut], Lajmi Lakhal-Chaieb [aut], Arnaud Droit [aut]
Maintainer: Astrid Deschênes <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 |
| 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) (0.5 years) |
| 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.
| Source Package | 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 |
| Source Repository | git clone https://git.bioconductor.org/packages/RJMCMCNucleosomes |
| Package Short Url | http://bioconductor.org/packages/RJMCMCNucleosomes/ |
| Package Downloads Report | Download Stats |
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