nucleoSim

DOI: 10.18129/B9.bioc.nucleoSim    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see nucleoSim.

Generate synthetic nucleosome maps

Bioconductor version: 3.14

This package can generate a synthetic map with reads covering the nucleosome regions as well as a synthetic map with forward and reverse reads emulating next-generation sequencing. The user has choice between three different distributions for the read positioning: Normal, Student and Uniform.

Author: Rawane Samb [aut], Astrid DeschĂȘnes [cre, aut], Pascal Belleau [aut], Arnaud Droit [aut]

Maintainer: Astrid Deschenes <adeschen at hotmail.com>

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

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("nucleoSim")

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("nucleoSim")

 

HTML R Script Generate synthetic nucleosome maps
PDF   Reference Manual
Text   NEWS

Details

biocViews Alignment, Genetics, Sequencing, Software, StatisticalMethod
Version 1.22.0
In Bioconductor since BioC 3.3 (R-3.3) (6 years)
License Artistic-2.0
Depends
Imports stats, IRanges, S4Vectors, graphics, methods
LinkingTo
Suggests BiocStyle, BiocGenerics, knitr, rmarkdown, RUnit
SystemRequirements
Enhances
URL https://github.com/arnauddroitlab/nucleoSim
BugReports https://github.com/arnauddroitlab/nucleoSim/issues
Depends On Me
Imports Me
Suggests Me RJMCMCNucleosomes
Links To Me
Build Report  

Package Archives

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

Source Package nucleoSim_1.22.0.tar.gz
Windows Binary nucleoSim_1.22.0.zip
macOS 10.13 (High Sierra) nucleoSim_1.22.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/nucleoSim
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/nucleoSim
Package Short Url https://bioconductor.org/packages/nucleoSim/
Package Downloads Report Download Stats

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