nucleR

This is the development version of nucleR; for the stable release version, see nucleR.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9

Nucleosome positioning package for R

Bioconductor version: Development (3.24)

Nucleosome positioning for Tiling Arrays and NGS experiments.

Author: Oscar Flores, Ricard Illa

Maintainer: Alba Sala <alba.sala at irbbarcelona.org>

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

Oscar Flores, Ricard Illa. nucleR: Nucleosome positioning package for R. doi:10.18129/B9.bioc.nucleR, R package version 2.45.0, https://bioconductor.org/packages/nucleR.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("nucleR")

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("nucleR")

Quick analysis of nucleosome positioning experiments using the nucleR package	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ChIPSeq, Coverage, DataImport, Genetics, Microarray, NucleosomePositioning, QualityControl, Sequencing, Software
Version	2.45.0
In Bioconductor since	BioC 2.9 (R-2.14) (15 years)
License	LGPL (>= 3)
Depends	R (>= 3.5.0), methods
Imports	Biobase, BiocGenerics, Biostrings, Seqinfo, GenomicRanges, IRanges, Rsamtools, S4Vectors, ShortRead, dplyr, ggplot2, magrittr, parallel, stats, utils, grDevices
System Requirements
URL

Suggests	BiocStyle, knitr, rmarkdown, testthat
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	nucleR_2.45.0.tar.gz
Windows Binary (x86_64)	nucleR_2.45.0.zip
macOS Binary (big-sur-x86_64)	nucleR_2.45.0.tgz
macOS Binary (sonoma-arm64)	nucleR_2.45.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/nucleR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/nucleR
Package Short Url	https://bioconductor.org/packages/nucleR/
Package Downloads Report	Download Stats